February 2012 Archives by date

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Starting: Wed Feb 1 04:09:01 CET 2012
Ending: Wed Feb 29 23:53:53 CET 2012
Messages: 643

• [BioC] [Rocky] - R code for PGSEA package to identify differentially expressed genes   Valerie Obenchain
• [BioC] Help With RNA-seq   Valerie Obenchain
• [BioC] Can SAM be combined with the bootstrap with replacement method?   Baskaran [guest]
• [BioC] VariantAnnotation updated - error in predictCoding   Lescai, Francesco
• [BioC] converting intensity values to log ratios?   James W. MacDonald
• [BioC] Help With RNA-seq   Valerie Obenchain
• [BioC] Help With RNA-seq   Thomas J Hardcastle
• [BioC] Loading quantiles normalized root data in XPS   Paul Geeleher
• [BioC] subsetting transcriptDb   Juliet Hannah
• [BioC] Loading quantiles normalized root data in XPS   cstrato
• [BioC] DESeq on transcripts v/s genes   Abhishek Pratap
• [BioC] DESeq on transcripts v/s genes   wang peter
• [BioC] DESeq on transcripts v/s genes   Abhishek Pratap
• [BioC] converting transcripts to gene level   Abhishek Pratap
• [BioC] subsetting transcriptDb   Marc Carlson
• [BioC] DESeq estimateDispersion query   Michal Okoniewski
• [BioC] GCRMA computing affinities error length(prlen) == 1   Tippmann, Sylvia
• [BioC] GCRMA computing affinities error length(prlen) == 1   Tippmann, Sylvia
• [BioC] Loading quantiles normalized root data in XPS   Paul Geeleher
• [BioC] converting transcripts to gene level   Michael Lawrence
• [BioC] GCRMA computing affinities error length(prlen) == 1   Hooiveld, Guido
• [BioC] calculation of probability values from multivariate normal densities   Michał Góralski
• [BioC] TopGO p-values VS DAVID p-values   Paul Geeleher
• [BioC] calculation of probability values from multivariate normal densities   Vincent Carey
• [BioC] calculation of probability values from multivariate normal densities   Tim Triche, Jr.
• [BioC] calculation of probability values from multivariate normal densities   Michał Góralski
• [BioC] converting transcripts to gene level   Valerie Obenchain
• [BioC] GEOquery Error   ying chen
• [BioC] GEOquery Error   Sean Davis
• [BioC] Loading quantiles normalized root data in XPS   cstrato
• [BioC] Error in gammaFitEM for library(lumi) [Possible Bug]   Chang Jun Park
• [BioC] GenomicFeatures::makeTranscriptDbFromBiomart - Error in callSuper(...) : could not find function "initRefFields"   Cook, Malcolm
• [BioC] FW: GenomicFeatures::makeTranscriptDbFromBiomart - Error in callSuper(...) : could not find function "initRefFields"   Cook, Malcolm
• [BioC] create GeneSetCollection from OBOCollection   Marc Carlson
• [BioC] findOverlaps with strand info   Chris Stubben
• [BioC] [course] CSAMA 2012: Computational Statistics for Genome Biology (Tenth Edition)   stefano iacus
• [BioC] findOverlaps with strand info   Michael Lawrence
• [BioC] [course] CSAMA 2012: Computational Statistics for Genome Biology (Tenth Edition)   stefano iacus
• [BioC] FW: GenomicFeatures::makeTranscriptDbFromBiomart - Error in callSuper(...) : could not find function "initRefFields"   Marc Carlson
• [BioC] How to specify factors for a RCBD in edgeR   Gordon K Smyth
• [BioC] How to specify factors for a RCBD in edgeR   Tilahun Abebe
• [BioC] Fwd: findOverlaps with strand info   Michael Lawrence
• [BioC] GEOquery Error   ying chen
• [BioC] GEOquery Error   Sean Davis
• [BioC] Problem using KEGGSOAP: multiple genes per identity   January Weiner
• [BioC] Cross-comparison of independent intensities from different experiments (genepix) (sorry I don\'t know how to describe the problem better)   Susanne Gerber [guest]
• [BioC] Cross-comparison of independent intensities from different experiments (genepix) (sorry I don\'t know how to describe the problem better)   James W. MacDonald
• [BioC] Trouble in using AgiMicroRna Package   Kannan Venugopal
• [BioC] Updating   Iain Morrison
• [BioC] Cross-comparison of independent intensities from different experiments (genepix) (sorry I don\'t know how to describe the problem better)   Susanne Gerber
• [BioC] FW: GenomicFeatures::makeTranscriptDbFromBiomart - Error in callSuper(...) : could not find function "initRefFields"   Cook, Malcolm
• [BioC] package to count read prior to DESeq?   nathalie
• [BioC] FW: GenomicFeatures::makeTranscriptDbFromBiomart - Error in callSuper(...) : could not find function "initRefFields"   Cook, Malcolm
• [BioC] package to count read prior to DESeq?   Steve Lianoglou
• [BioC] Cross-comparison of independent intensities from different experiments (genepix) (sorry I don\'t know how to describe the problem better)   James W. MacDonald
• [BioC] package to count read prior to DESeq?   Nicolas Delhomme
• [BioC] package to count read prior to DESeq?   Abhishek Pratap
• [BioC] FW: GenomicFeatures::makeTranscriptDbFromBiomart - Error in callSuper(...) : could not find function "initRefFields"   Marc Carlson
• [BioC] package to count read prior to DESeq?   Nicolas Delhomme
• [BioC] FW: GenomicFeatures::makeTranscriptDbFromBiomart - Error in callSuper(...) : could not find function "initRefFields"   Cook, Malcolm
• [BioC] package to count read prior to DESeq?   Abhishek Pratap
• [BioC] GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred from the exon and UTR info doesn't match the "cds_length" attribute from BioMart   Cook, Malcolm
• [BioC] package to count read prior to DESeq?   Nicolas Delhomme
• [BioC] Z-Score Calculation for hgu133plus2 affymetrix microarray.   Murtuza Zair
• [BioC] BaseCounts & edgeR   Gordon K Smyth
• [BioC] error "Too many pushAbortHandlers, can only handle 11" while exporting bedGraph/bigWig using rtracklayer from Bioconductor   Cook, Malcolm
• [BioC] error "Too many pushAbortHandlers, can only handle 11" while exporting bedGraph/bigWig using rtracklayer from Bioconductor   Michael Lawrence
• [BioC] Proxy setting for R/Bioconductor   Karthik
• [BioC] Proxy setting for R/Bioconductor   Vincent Carey
• [BioC] Updating   Martin Morgan
• [BioC] Z-Score Calculation for hgu133plus2 affymetrix microarray.   Steve Lianoglou
• [BioC] Z-Score Calculation for hgu133plus2 affymetrix microarray.   Matthew McCall
• [BioC] Microarray: correlation and Rgraphviz   CAM HABI
• [BioC] Proxy setting for R/Bioconductor   Dan Tenenbaum
• [BioC] Adjusting removeBatchEffect from limma   Gordon K Smyth
• [BioC] Installing AgiMicroRna Package   Karthik K N
• [BioC] Limma question_Intra-Spot Correlation Question   jgomez at uni-potsdam.de
• [BioC] DESeq on transcripts v/s genes   Wolfgang Huber
• [BioC] DEseq   saikouy bah
• [BioC] Installing AgiMicroRna Package   Martin Morgan
• [BioC] Microarray: correlation and Rgraphviz   Martin Morgan
• [BioC] DESeq on transcripts v/s genes   Wolfgang Huber
• [BioC] Limma question_Intra-Spot Correlation Question   Gordon K Smyth
• [BioC] package to count read prior to DESeq?   Wei Shi
• [BioC] Issues with AgiMicroRna filtering step (Error in is(ddNORM, "uRNAList") : object 'ddNORM' not found)   Karthik K N
• [BioC] Exporting results from AgiMicroRna to GeneSpring GX   Karthik
• [BioC] DEseq   Simon Anders
• [BioC] GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred from the exon and UTR info doesn't match the "cds_length" attribute from BioMart   Rhoda Kinsella
• [BioC] annotaion package   Bidisha Mitra
• [BioC] Updated affy package? ReadAffy/ AffyBatch has changed and breaks my pipeline!   Benjamin Høyer
• [BioC] Important: Help with eBayes in AgiMicrRna and on how to find differentially expressed genes   Karthik K N
• [BioC] baySeq   Tina Asante Boahene
• [BioC] Important: Help with eBayes in AgiMicrRna and on how to find differentially expressed genes   Sean Davis
• [BioC] Important: Help with eBayes in AgiMicrRna and on how to find differentially expressed genes   Karthik K N
• [BioC] Important: Help with eBayes in AgiMicrRna and on how to find differentially expressed genes   Sean Davis
• [BioC] Important: Help with eBayes in AgiMicrRna and on how to find differentially expressed genes   Lucas Santana dos Santos
• [BioC] Important: Help with eBayes in AgiMicrRna and on how to find differentially expressed genes   Sean Davis
• [BioC] Important: Help with eBayes in AgiMicrRna and on how to find differentially expressed genes   Lucas Santana dos Santos
• [BioC] Loading quantiles normalized root data in XPS   Paul Geeleher
• [BioC] Updated affy package? ReadAffy/ AffyBatch has changed and breaks my pipeline!   James W. MacDonald
• [BioC] BioMart data anomaly: for some transcripts, the cds cumulative length inferred from the exon and UTR info doesn't match the "cds_length" attribute from BioMart   Cook, Malcolm
• [BioC] Rsubread installation failed.   Sang Chul Choi
• [BioC] Rsubread installation failed.   Dan Tenenbaum
• [BioC] GEOquery Error   ying chen
• [BioC] Updated affy package? ReadAffy/ AffyBatch has changed and breaks my pipeline!   Martin Morgan
• [BioC] Rsubread installation failed.   Sang Chul Choi
• [BioC] baySeq   Severin Uebbing
• [BioC] Error reading cel files using Readaffy() or getGEO()   Salwa [guest]
• [BioC] Error reading cel files using Readaffy() or getGEO()   James W. MacDonald
• [BioC] Loading quantiles normalized root data in XPS   cstrato
• [BioC] Adjusting removeBatchEffect from limma   Djie Tjwan Thung
• [BioC] Rsubread installation failed.   Dan Tenenbaum
• [BioC] narrow on GappedAlignments fails with error   Hervé Pagès
• [BioC] GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred from the exon and UTR info doesn't match the "cds_length" attribute from BioMart   Hervé Pagès
• [BioC] DESeq on transcripts v/s genes   Abhishek Pratap
• [BioC] edgeR for paired-end and strand specific data   wang peter
• [BioC] Fw: annotaion package   Bidisha Mitra
• [BioC] Updating   Iain Morrison
• [BioC] baySeq   Iain Gallagher
• [BioC] Rsamtools installation error   Wolfgang Raffelsberger
• [BioC] easyRNASeq - error reading single chromosome bam   Lescai, Francesco
• [BioC] Loading quantiles normalized root data in XPS   Paul Geeleher
• [BioC] easyRNASeq - error reading single chromosome bam   Nicolas Delhomme
• [BioC] Problem while installing \"org.At.tair.db\" and \"ath1121501.db\"   Reetu [guest]
• [BioC] Problem while installing \"org.At.tair.db\" and \"ath1121501.db\"   Sean Davis
• [BioC] Loading quantiles normalized root data in XPS   Paul Geeleher
• [BioC] Limma: questions about data pre-processing   Vladimir Krasikov
• [BioC] easyRNASeq - error reading single chromosome bam   Lescai, Francesco
• [BioC] Two populations on microarray   Ben Tupper
• [BioC] Limma: questions about data pre-processing   axel.klenk at actelion.com
• [BioC] Problem while installing \"org.At.tair.db\" and \"ath1121501.db\"   Sean Davis
• [BioC] easyRNASeq - error reading single chromosome bam   Nicolas Delhomme
• [BioC] Rsamtools installation error   Martin Morgan
• [BioC] Problem while installing   Reetu
• [BioC] Problem while installing \"org.At.tair.db\" and \"ath1121501.db\"   TUTEJA, REETU
• [BioC] Rsamtools installation error   Wolfgang Raffelsberger
• [BioC] Is anyone using affylmGUI for Affy Exon 1.0 analysis?   Alan Derr
• [BioC] Is anyone using affylmGUI for Affy Exon 1.0 analysis?   James W. MacDonald
• [BioC] easyRNASeq - error reading single chromosome bam   Lescai, Francesco
• [BioC] Coefficients not estimable   somnath bandyopadhyay
• [BioC] GEOquery Error : Retrieved files corrupted?   ying chen
• [BioC] easyRNASeq - error reading single chromosome bam   Nicolas Delhomme
• [BioC] SOM clustering   Tanay Ghosh [guest]
• [BioC] SOM clustering   Straubhaar, Juerg
• [BioC] GEOquery Error : Retrieved files corrupted?   Sean Davis
• [BioC] GEOquery Error : Retrieved files corrupted?   ying chen
• [BioC] How do I define my design in FDR-AME package   Yu Chen [guest]
• [BioC] Rgraphviz: cannot allocate memory block of size 3.4 Gb   Matthew Pettis
• [BioC] annotaion package   Sean Davis
• [BioC] GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred from the exon and UTR info doesn't match the "cds_length" attribute from BioMart   Hervé Pagès
• [BioC] Loading quantiles normalized root data in XPS   cstrato
• [BioC] Loading quantiles normalized root data in XPS   cstrato
• [BioC] Rgraphviz: cannot allocate memory block of size 3.4 Gb   Vincent Carey
• [BioC] [Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred from the exon and UTR info doesn't match the "cds_length" attribute from BioMart   Cook, Malcolm
• [BioC] Rgraphviz: cannot allocate memory block of size 3.4 Gb   Matthew Pettis
• [BioC] Rgraphviz: cannot allocate memory block of size 3.4 Gb   Dan Tenenbaum
• [BioC] Rgraphviz: cannot allocate memory block of size 3.4 Gb   Matthew Pettis
• [BioC] [Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred from the exon and UTR info doesn't match the "cds_length" attribute from BioMart   rhoda at ebi.ac.uk
• [BioC] Rgraphviz: cannot allocate memory block of size 3.4 Gb   Dan Tenenbaum
• [BioC] Rgraphviz: cannot allocate memory block of size 3.4 Gb   Martin Morgan
• [BioC] Coefficients not estimable   Naomi Altman
• [BioC] FDR (False Discovery Rate)   Tina Asante Boahene
• [BioC] baySeq   Tina Asante Boahene
• [BioC] Coefficients not estimable   somnath bandyopadhyay
• [BioC] Coefficients not estimable   Gordon K Smyth
• [BioC] Separating channels of a two-color microarray   January Weiner
• [BioC] GEOquery Error : Retrieved files corrupted?   axel.klenk at actelion.com
• [BioC] baySeq   Tom Hardcastle
• [BioC] Limma: questions about data pre-processing   Vladimir Krasikov
• [BioC] Coefficients not estimable   somnath bandyopadhyay
• [BioC] NormqPCR and ReadqPCR   Pepijn Kooij
• [BioC] flowFlowJo error   Gabriel Kaufman
• [BioC] Rgraphviz: cannot allocate memory block of size 3.4 Gb   Matthew Pettis
• [BioC] GenomeGraphs question   Iain Gallagher
• [BioC] How to install topGO on R version 2.14.0   gabriel [guest]
• [BioC] How to install topGO on R version 2.14.0   Sean Davis
• [BioC] GenomeGraphs question   Joern Toedling
• [BioC] [Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred from the exon and UTR info doesn't match the "cds_length" attribute from BioMart   Rhoda Kinsella
• [BioC] Error message with RNAither   Catherine Garry
• [BioC] Error message with RNAither   Dan Tenenbaum
• [BioC] Genomicfeatures chromosome names matching   Hervé Pagès
• [BioC] Error message with RNAither   Dan Tenenbaum
• [BioC] report a possible bug of edgeR   wang peter
• [BioC] iFlow error messages   Gabriel Kaufman
• [BioC] Coefficients not estimable   Gordon K Smyth
• [BioC] DESeq and transcript-wise analysis   Elena Sorokin
• [BioC] DESeq and transcript-wise analysis   Abhishek Pratap
• [BioC] DESeq and transcript-wise analysis   Martin Morgan
• [BioC] Fw: annotaion package   Marc Carlson
• [BioC] DEGseq help   Tina Asante Boahene
• [BioC] DESeq and transcript-wise analysis   Simon Anders
• [BioC] Error message with RNAither   Catherine Garry
• [BioC] Limma: questions about data pre-processing   Vladimir Krasikov
• [BioC] DESeq and transcript-wise analysis   Nicolas Delhomme
• [BioC] Error message with RNAither   Martin Morgan
• [BioC] GenomicFeatures::makeTranscriptDbFromGTF?   Steve Lianoglou
• [BioC] February-March 2012 ***R/S-PLUS Courses***by XLSolutions Corp at 9 USA locations   sue at xlsolutions-corp.com
• [BioC] DESeq and transcript-wise analysis   Thomas Girke
• [BioC] DESeq and transcript-wise analysis   Nicolas Delhomme
• [BioC] Limma: questions about data pre-processing   axel.klenk at actelion.com
• [BioC] suggestions/comments on DESeq transcript wise analysis   Akula, Nirmala (NIH/NIMH) [C]
• [BioC] GenomicFeatures::makeTranscriptDbFromGTF?   Tim Triche, Jr.
• [BioC] suggestions/comments on DESeq transcript wise analysis   Abhishek Pratap
• [BioC] GenomicFeatures::makeTranscriptDbFromGTF?   Steve Lianoglou
• [BioC] Optimisation   Simon Noël
• [BioC] GenomicFeatures::makeTranscriptDbFromGTF?   Tim Triche, Jr.
• [BioC] GenomicFeatures::makeTranscriptDbFromGTF?   Steve Lianoglou
• [BioC] how can i convert a gse object(expression sets) to affybatch   Salwa Eid
• [BioC] Import sequences from MacClade 4.*   Brian
• [BioC] DESeq and transcript-wise analysis   Elena Sorokin
• [BioC] RE : maping SNPs   Simon Noël
• [BioC] RE : maping SNPs   Hervé Pagès
• [BioC] RE : RE : maping SNPs   Simon Noël
• [BioC] GenomicFeatures::makeTranscriptDbFromGTF?   Michael Lawrence
• [BioC] GenomicFeatures::makeTranscriptDbFromGTF?   Steve Lianoglou
• [BioC] Removing probes with low variance across samples (Infinium 450k)   khadeeja ismail
• [BioC] RE : RE : maping SNPs   Hervé Pagès
• [BioC] Using write.table with output from topTags [was: report a possible bug of edgeR]   Gordon K Smyth
• [BioC] DESeq and transcript-wise analysis   Ann Loraine
• [BioC] Removing probes with low variance across samples (Infinium 450k)   Tim Triche, Jr.
• [BioC] how can i convert a gse object(expression sets) to affybatch   Sean Davis
• [BioC] ConsensusClusterPlus extracting features for clusters   somnath bandyopadhyay
• [BioC] limma barcodeplot with 2 groups   Dario Strbenac
• [BioC] bioMart   Bogdan Tanasa
• [BioC] Inconsistent coefficient values   Richard Coulson [guest]
• [BioC] a problem in reading in cel files   Manuela Di Russo
• [BioC] NormqPCR and ReadqPCR   James Perkins
• [BioC] Inconsistent coefficient values   Vincent Carey
• [BioC] GOSeq error   Iain Gallagher
• [BioC] a problem in reading in cel files   James F. Reid
• [BioC] Limma: questions about data pre-processing   Vladimir Krasikov
• [BioC] Finding the similarity of two microarray experiments   blockaa at huskers.unl.edu
• [BioC] Integer overflow when summing an 'integer' Rle   Nicolas Delhomme
• [BioC] about library size and length of gene information in DEseq   wang peter
• [BioC] Open Position :: Postdoc in systems genetics in Cambridge   Florian Markowetz
• [BioC] Empty RangedData with value columns?   Robert Scharpf
• [BioC] about library size and length of gene information in DEseq   Wolfgang Huber
• [BioC] Inconsistent coefficient values   Wolfgang Huber
• [BioC] Integer overflow when summing an 'integer' Rle   Hervé Pagès
• [BioC] Empty RangedData with value columns?   Michael Lawrence
• [BioC] gene function assessment   Abhishek Pratap
• [BioC] gene function assessment   Sean Davis
• [BioC] gene function assessment   Abhishek Pratap
• [BioC] limma barcodeplot with 2 groups   Gordon K Smyth
• [BioC] gplots Heatmap   Polikepahad, Sumanth
• [BioC] gene function assessment   Sean Davis
• [BioC] gene function assessment   Abhishek Pratap
• [BioC] DEXseq: Making exonCountSet object   Elena Sorokin
• [BioC] gene function assessment   Sean Davis
• [BioC] gene function assessment   Abhishek Pratap
• [BioC] gene function assessment   Sean Davis
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Thomas Girke
• [BioC] DEXseq: Making exonCountSet object   Simon Anders
• [BioC] GOseq error   Alicia Oshlack
• [BioC] Help baySeq   Tina Asante Boahene
• [BioC] GOseq error   Iain Gallagher
• [BioC] GenomicFeatures::makeTranscriptDbFromGTF?   Tim Triche, Jr.
• [BioC] DEXseq: Making exonCountSet object   Elena Sorokin
• [BioC] AB Rat Genome Survey Microarray   Iain Gallagher
• [BioC] using easyRNASeq examples   Nicolas Delhomme
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Martin Morgan
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Thomas Girke
• [BioC] impute package   Wendy Yim
• [BioC] Separating channels of a two-color microarray   Naomi Altman
• [BioC] Two populations on microarray   Naomi Altman
• [BioC] [SPAM] DEseq   Naomi Altman
• [BioC] Probe include snp in HG-U133_Plus_2   Fabrice Tourre
• [BioC] question about normalization of RNAseq by tweeDEseq using TMM from edgeR   Sermsawat Tunlaya-Anukit
• [BioC] DEXseq: Making exonCountSet object   Simon Anders
• [BioC] Import sequences from MacClade 4.*   Jarno Tuimala
• [BioC] missing probe_id in ath1121501.db   Stefan Bleuler
• [BioC] Bioconductor Digest, Vol 108, Issue 12   Alejandro Reyes
• [BioC] DEXseq: Making exonCountSet object   Alejandro Reyes
• [BioC] Separating channels of a two-color microarray   January Weiner
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Wei Shi
• [BioC] GenomicRanges requires a IRanges version not available in the repository   Juan L. Mateo
• [BioC] Probe include snp in HG-U133_Plus_2   James W. MacDonald
• [BioC] relationship between Fold Change and SLR   Laura Bermúdez
• [BioC] Creating a customized cut flow with the affy/limma packages   J.M.Jensen [guest]
• [BioC] Creating a customized cut flow with the affy/limma packages   James W. MacDonald
• [BioC] DeSeq vs current version of Cuffdiff   Richard Friedman
• [BioC] DeSeq vs current version of Cuffdiff   Tim Triche, Jr.
• [BioC] Inconsistent coefficient values   Richard Coulson
• [BioC] question about normalization of RNAseq by tweeDEseq using TMM from edgeR   Robert Castelo
• [BioC] iSeq package\'s peakreg fails   Lauri Lyly [guest]
• [BioC] Two populations on microarray   Ben Tupper
• [BioC] SNP6 data to VCF   Sean Davis
• [BioC] Inquiry package for Illumina BeadChip HumanOmni   Jiang [guest]
• [BioC] SNP6 data to VCF   Vincent Carey
• [BioC] SNP6 data to VCF   Sean Davis
• [BioC] Installing GenomicRanges require a version of IRanges unavailable   Duhaime Johanne
• [BioC] BSgenome installation error   Mohamed Radhouane Aniba
• [BioC] BSgenome installation error   Tim Triche, Jr.
• [BioC] question about normalization of RNAseq by tweeDEseq using TMM from edgeR   Sermsawat Tunlaya-Anukit
• [BioC] SNP6 data to VCF   Benilton Carvalho
• [BioC] Relationship between Fold Change and SLR   Laura [guest]
• [BioC] BSgenome installation error   Hervé Pagès
• [BioC] DEXseq: Making exonCountSet object   Elena Sorokin
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Wei Shi
• [BioC] DESeq dispersions for series   Willie Nelson
• [BioC] Affymetrix internal control up-regulated, is anything wrong?   Michele Bellesi [guest]
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Thomas Girke
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Wei Shi
• [BioC] impute package   Tim Triche, Jr.
• [BioC] Red line in MAplots, is it lowess or smooth.spline?   Ali Mohammadian
• [BioC] question about normalization of RNAseq by tweeDEseq using TMM from edgeR   Robert Castelo
• [BioC] Error in gammaFitEM for library(lumi) [Possible Bug]   Elodie Chapeaublanc
• [BioC] [lumi] methylumIDAT : probleme to read idat files   Dylan Aïssi [guest]
• [BioC] Creating a customized cut flow with the affy/limma packages   J.M.Jensen
• [BioC] Creating a customized cut flow with the affy/limma packages   J.M.Jensen
• [BioC] Help to access hapmap using biomart   MLSC
• [BioC] GenomicRanges requires a IRanges version not available in the repository   Vincent Carey
• [BioC] Loading quantiles normalized root data in XPS   Paul Geeleher
• [BioC] clippda: a package for clinical proteomics data analysis   Stephen Nyangoma
• [BioC] impute package   Martin Morgan
• [BioC] DeSeq vs current version of Cuffdiff   Stephen Turner
• [BioC] Creating a customized cut flow with the affy/limma packages   James W. MacDonald
• [BioC] Affymetrix internal control up-regulated, is anything wrong?   James W. MacDonald
• [BioC] number of genes for DESeq analysis   vladimir mashanov
• [BioC] DeSeq vs current version of Cuffdiff   Nicolas Delhomme
• [BioC] gplots Heatmap   Steve Lianoglou
• [BioC] gplots Heatmap   Wolfgang Huber
• [BioC] Red line in MAplots, is it lowess or smooth.spline?   Steve Lianoglou
• [BioC] SNPlocs package for dbSNP 135   Hervé Pagès
• [BioC] DESeq dispersions for series   Steve Lianoglou
• [BioC] Integer overflow when summing an 'integer' Rle   Nicolas Delhomme
• [BioC] edgeR: GLM & residuals and model fitting & hypothesis testing   Susanne Franssen
• [BioC] Poisson noise with respect to digital gene expression   Dave Tang
• [BioC] IlluminaMousev2.db probe quality information questions?   Lourdes Peña Castillo
• [BioC] Loading quantiles normalized root data in XPS   cstrato
• [BioC] Best way to normalize GEO gene expression datasets from different labs/sources?   ying chen
• [BioC] Best way to normalize GEO gene expression datasets from different labs/sources?   Matthew McCall
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Wei Shi
• [BioC] Possible bug in sva package regarding ComBat and use of numCovs   Djie Tjwan Thung
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Martin Morgan
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Wei Shi
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Thomas Girke
• [BioC] Rsubread/Rsamtools mappings outside of chromosome ranges   Thomas Girke
• [BioC] Error in readSeqFile of qrqc package?   Sang Chul Choi
• [BioC] Best way to normalize GEO gene expression datasets from different labs/sources?   shirley zhang
• [BioC] how to set library size in DESeq?   wang peter
• [BioC] Best way to normalize GEO gene expression datasets from different labs/sources?   Matthew McCall
• [BioC] how to set library size in DESeq?   Simon Anders
• [BioC] arrayQualityMetrics package - bugs and errors   Vladimir Krasikov
• [BioC] Siggenes SAM analysis: log2 transformation and Understanding output   David Westergaard
• [BioC] how to set library size in DESeq?   wang peter
• [BioC] How to plot NGS data?   Bernd Jagla
• [BioC] how to set library size in DESeq?   Simon Anders
• [BioC] [Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred from the exon and UTR info doesn't match the "cds_length" attribute from BioMart   Cook, Malcolm
• [BioC] arrayQualityMetrics package - bugs and errors   Martin Morgan
• [BioC] arrayQualityMetrics package - bugs and errors   Vladimir Krasikov
• [BioC] how to update DEseq package on windows?   wang peter
• [BioC] how to update DEseq package on windows?   Nicolas Delhomme
• [BioC] Possible bug in sva package regarding ComBat and use of numCovs   Jeff Leek
• [BioC] Compensating using spillover function of flowCore   John Pura
• [BioC] Limma: questions about data pre-processing   axel.klenk at actelion.com
• [BioC] DeSeq vs current version of Cuffdiff   Martin Morgan
• [BioC] arrayQualityMetrics package - bugs and errors   Wolfgang Huber
• [BioC] Limma: questions about data pre-processing   Vladimir Krasikov
• [BioC] edgeR: GLM & residuals and model fitting & hypothesis testing   Gordon K Smyth
• [BioC] Possible bug in sva package regarding ComBat and use of numCovs   Djie Tjwan Thung
• [BioC] Biostrings - pairwiseAlignment trimmed pattern returned   Erik Wright
• [BioC] a problem to install bioconductor on 2.14   wang peter
• [BioC] a problem to install bioconductor on 2.14   Vincent Carey
• [BioC] Estimating fold change from limma 'log2FC' using lumi vst instead of log2 transformation?   Ross
• [BioC] How to plot NGS data?   Martin Morgan
• [BioC] edgeR: GLM & residuals and model fitting & hypothesis testing   Susanne Franssen
• [BioC] Error in gammaFitEM for library(lumi) [Possible Bug]   Pan Du
• [BioC] meta-analysis with RankProd   Barbara Shih
• [BioC] Gettin Expressions back from MA.List   Ali Mohammadian
• [BioC] How to plot NGS data?   Steve Lianoglou
• [BioC] problem with Gviz installation...   Bernd Jagla
• [BioC] problem with Gviz installation...   Steve Lianoglou
• [BioC] problem with Gviz installation...   Vincent Carey
• [BioC] htSeqTools errors   Juan L. Mateo
• [BioC] arrayQualityMetrics package - bugs and errors   Vladimir Krasikov
• [BioC] Gettin Expressions back from MA.List   Kevin R. Coombes
• [BioC] clippda: a package for clinical proteomics data analysis   Valerie Obenchain
• [BioC] Compensating using spillover function of flowCore   Finak, Greg
• [BioC] 'which' argument to readGappedAlignments   Juliet Hannah
• [BioC] Siggenes SAM analysis: log2 transformation and Understanding output   James W. MacDonald
• [BioC] How to plot NGS data?   Tim Triche, Jr.
• [BioC] number of genes for DESeq analysis   Abhishek Pratap
• [BioC] 'which' argument to readGappedAlignments   Steve Lianoglou
• [BioC] How to plot NGS data?   Tengfei Yin
• [BioC] number of genes for DESeq analysis   Simon Anders
• [BioC] 17th Summer Institute in Statistical Genetics, Seattle, July 9-27   Stephanie M. Gogarten
• [BioC] AB Rat Genome Survey Microarray   Iain Gallagher
• [BioC] SCIENTIFIC DATA CURATOR / 40 HOUR / DAY / BWH - CHANNING LABORATORY   Brigham and Women's Hospital [guest]
• [BioC] IS PROGRAMMER/ANALYST I / 40 HOUR / DAY / BWH - CHANNING LABORATORY   Brigham and Women's Hospital [guest]
• [BioC] Best way to normalize GEO gene expression datasets from different labs/sources?   ying chen
• [BioC] Best way to normalize GEO gene expression datasets from different labs/sources?   Matthew McCall
• [BioC] Best way to normalize GEO gene expression datasets from different labs/sources?   ying chen
• [BioC] DEXseq: fitDispersionFunction error   Elena Sorokin
• [BioC] [lumi] methylumIDAT : probleme to read idat files   Tim Triche, Jr.
• [BioC] Import sequences from MacClade 4.*   Brian
• [BioC] Estimating fold change from limma 'log2FC' using lumi   Gordon K Smyth
• [BioC] edgeR: GLM & residuals and model fitting & hypothesis testing   Gordon K Smyth
• [BioC] Estimating fold change from limma 'log2FC' using lumi   Ross
• [BioC] Error in readSeqFile of qrqc package?   Vince S. Buffalo
• [BioC] problem with Gviz installation...   Vincent Carey
• [BioC] problem with Gviz installation...   Michael Lawrence
• [BioC] [lumi] methylumIDAT : probleme to read idat files   Dylan Aïssi
• [BioC] [lumi] methylumIDAT : probleme to read idat files   Benilton Carvalho
• [BioC] [lumi] methylumIDAT : probleme to read idat files   Dylan Aïssi
• [BioC] edgeR: GLM - adjusting for unwanted effect?!   Lina Weber
• [BioC] DEXseq: fitDispersionFunction error   Alejandro Reyes
• [BioC] use of duplicateCorrelation in Limma with agilent one-color arrays   Jabez Wilson
• [BioC] EBImage package   Jordi van Gestel
• [BioC] Siggenes SAM analysis: log2 transformation and Understanding output   David Westergaard
• [BioC] LIMMA => 1000 samples vs 3 samples   Daniel
• [BioC] Siggenes SAM analysis: log2 transformation and Understanding output   James W. MacDonald
• [BioC] DEXseq: fitDispersionFunction error   Elena Sorokin
• [BioC] DEXseq: fitDispersionFunction error   Alejandro Reyes
• [BioC] DEXseq: fitDispersionFunction error   Nicolas Delhomme
• [BioC] DEXseq: fitDispersionFunction error   Steve Lianoglou
• [BioC] How to plot NGS data?   Hahne, Florian
• [BioC] How to plot NGS data?   Steve Lianoglou
• [BioC] qcplot() error in methylumi?   Aaron Mackey
• [BioC] qcplot() error in methylumi?   Tim Triche, Jr.
• [BioC] convert between MethylLumiSet (methylumi) and RGChannelSet (minfi)   Aaron Mackey
• [BioC] convert between MethylLumiSet (methylumi) and RGChannelSet (minfi)   Tim Triche, Jr.
• [BioC] DeSeq vs current version of Cuffdiff   Stephen Turner
• [BioC] convert between MethylLumiSet (methylumi) and RGChannelSet (minfi)   Kasper Daniel Hansen
• [BioC] DeSeq vs current version of Cuffdiff   Steve Lianoglou
• [BioC] how to remove affymetrix control probe sets from a an expression set   Salwa Eid
• [BioC] how to remove affymetrix control probe sets from a an expression set   Yuan Hao
• [BioC] Siggenes SAM analysis: log2 transformation and Understanding output   Holger Schwender
• [BioC] how to identify affymetrix control probe sets and then remove them from an expression set   Salwa Eid
• [BioC] EBImage package   Dan Tenenbaum
• [BioC] Compensating using spillover function of flowCore   John Pura
• [BioC] Removing phenoData and assayData   tyrone [guest]
• [BioC] meta-analysis with RankProd   Maciej Jończyk
• [BioC] Removing phenoData and assayData   Sean Davis
• [BioC] Installation errors for DESeq, Genomic Ranges etc.   Alpesh Querer
• [BioC] Installation errors for DESeq, Genomic Ranges etc.   Martin Morgan
• [BioC] ChIPpeakAnno   Brian Gadd
• [BioC] ChIPpeakAnno   Brian James Gadd
• [BioC] use of duplicateCorrelation in Limma with agilent one-color arrays   Gordon K Smyth
• [BioC] edgeR: GLM - adjusting for unwanted effect?!   Gordon K Smyth
• [BioC] Agilent 8x60K Gene Expression Package   Karthik K N
• [BioC] Agilent 8x60K Gene Expression Package   Sean Davis
• [BioC] ChIPpeakAnno   Sean Davis
• [BioC] Deferential gene expression databases   saikouy bah
• [BioC] DEXseq: fitDispersionFunction error   Wolfgang Huber
• [BioC] Add extra columns to GRanges Metadata   Paul Leo
• [BioC] Add extra columns to GRanges Metadata   Tim Triche, Jr.
• [BioC] Add extra columns to GRanges Metadata   Tim Triche, Jr.
• [BioC] Add extra columns to GRanges Metadata   Paul Leo
• [BioC] Help for snpMatrix   MLSC
• [BioC] problem with Gviz installation...   Bernd Jagla
• [BioC] Help for snpMatrix   Vincent Carey
• [BioC] use of duplicateCorrelation in Limma with agilent one-color arrays   Jabez Wilson
• [BioC] Reading 5000 celfiles with ReadAffy   Saif Ur-Rehman [guest]
• [BioC] Reading 5000 celfiles with ReadAffy   Paul Geeleher
• [BioC] How to plot NGS data?   Hahne, Florian
• [BioC] Add extra columns to GRanges Metadata   Steve Lianoglou
• [BioC] limma: to pair or not to pair?   Aaron Mackey
• [BioC] Add extra columns to GRanges Metadata   Michael Lawrence
• [BioC] htSeqTools errors   Valerie Obenchain
• [BioC] clippda: a package for clinical proteomics data analysis   Valerie Obenchain
• [BioC] Add extra columns to GRanges Metadata   Tim Triche, Jr.
• [BioC] Add extra columns to GRanges Metadata   Tengfei Yin
• [BioC] Reading 5000 celfiles with ReadAffy   Matthew McCall
• [BioC] Add extra columns to GRanges Metadata   Martin Morgan
• [BioC] Add extra columns to GRanges Metadata   Michael Lawrence
• [BioC] use of duplicateCorrelation in Limma with agilent one-color arrays   Gordon K Smyth
• [BioC] Biostrings - pairwiseAlignment trimmed pattern returned   Valerie Obenchain
• [BioC] Limma normalizeBetweenArrays When Samples Have Different Distributions   Dario Strbenac
• [BioC] Add extra columns to GRanges Metadata   Paul Leo
• [BioC] htSeqTools errors   Juan L. Mateo
• [BioC] htSeqTools errors   Oscar Reina
• [BioC] htSeqTools errors   Juan L. Mateo
• [BioC] use of duplicateCorrelation in Limma with agilent one-color arrays   Jabez Wilson
• [BioC] Loading quantiles normalized root data in XPS   Paul Geeleher
• [BioC] Reading 5000 celfiles with ReadAffy   Ying Chen
• [BioC] Testing for differential expression variability with edgeR   Miguel Gallach
• [BioC] how to remove affymetrix control probe sets from a an expression set   Juliet Hannah
• [BioC] Loading quantiles normalized root data in XPS   cstrato
• [BioC] Standard error and confidence intervals in DESeq?   Akula, Nirmala (NIH/NIMH) [C]
• [BioC] missing probe_id in ath1121501.db   Marc Carlson
• [BioC] coefficient of variation for Agilent chip log ratio data   array chip
• [BioC] Biostrings - pairwiseAlignment trimmed pattern returned   Erik Wright
• [BioC] tapply for enormous (>2^31 row) matrices   Matthew Keller
• [BioC] Reading 5000 celfiles with ReadAffy   Henrik Bengtsson
• [BioC] tapply for enormous (>2^31 row) matrices   Steve Lianoglou
• [BioC] tapply for enormous (>2^31 row) matrices   Benilton Carvalho
• [BioC] tapply for enormous (>2^31 row) matrices   Benilton Carvalho
• [BioC] Use probesets with highest baseline expression for differntial gene expression in LIMMA   Ekta [guest]
• [BioC] Add extra columns to GRanges Metadata   Hervé Pagès
• [BioC] makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : , bind.data must have non-zero dimensions   mabawsa
• [BioC] Add extra columns to GRanges Metadata   Paul Leo
• [BioC] Reading 5000 celfiles with ReadAffy   Alberto Goldoni
• [BioC] BiomaRt error: server down?   Lisa Hopcroft
• [BioC] BiomaRt error: server down?   Ekta Jain
• [BioC] BiomaRt error: server down?   Lisa Hopcroft
• [BioC] Finding coding SNPs with predictCoding   Alex Gutteridge
• [BioC] coefficient of variation for Agilent chip log ratio data   James W. MacDonald
• [BioC] Use probesets with highest baseline expression for differntial gene expression in LIMMA   James W. MacDonald
• [BioC] makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : , bind.data must have non-zero dimensions   Benilton Carvalho
• [BioC] Reading 5000 celfiles with ReadAffy   ying chen
• [BioC] Job openings: Staff Scientist - Computational Biology and Bioinformatics - Massachusetts General Hospital   Wittner, Ben, Ph.D.
• [BioC] warning in lumi   Francesco Mancuso
• [BioC] warning in lumi   Martin Morgan
• [BioC] warning in lumi   Martin Morgan
• [BioC] Finding coding SNPs with predictCoding   Hervé Pagès
• [BioC] warning in lumi   Kevin R. Coombes
• [BioC] warning in lumi   Martin Morgan
• [BioC] warning in lumi   Kevin R. Coombes
• [BioC] RE : Optimisation   Simon Noël
• [BioC] warning in lumi   Martin Morgan
• [BioC] tapply for enormous (>2^31 row) matrices   Hervé Pagès
• [BioC] Reading 5000 celfiles with ReadAffy   Henrik Bengtsson
• [BioC] Reading 5000 celfiles with ReadAffy   Henrik Bengtsson
• [BioC] SNP calling pipeline help   Sunny Yu Liu
• [BioC] Reading 5000 celfiles with ReadAffy   Henrik Bengtsson
• [BioC] RE : Optimisation   Tim Triche, Jr.
• [BioC] Reading 5000 celfiles with ReadAffy   cstrato
• [BioC] Testing for differential expression variability with edgeR   Gordon K Smyth
• [BioC] Use probesets with highest baseline expression for differntial gene expression in LIMMA   Ekta Jain
• [BioC] Experience with using the 'affy' package (v1.28.1) to perform QC on Affymetrix PrimeView human arrays   Daniel Hurley
• [BioC] missing probe_id in ath1121501.db   Stefan Bleuler
• [BioC] warning in lumi   Francesco Mancuso
• [BioC] warning in lumi   Martin Morgan
• [BioC] Use probesets with highest baseline expression for differntial gene expression in LIMMA   James W. MacDonald
• [BioC] Experience with using the 'affy' package (v1.28.1) to perform QC on Affymetrix PrimeView human arrays   James W. MacDonald
• [BioC] GO Analysis for Mouse Exon Array   Dai, Hongying,
• [BioC] [R] tapply for enormous (>2^31 row) matrices   Matthew Keller
• [BioC] segfault when using data.table package in conjunction with foreach   Matthew Keller
• [BioC] OS X 10.7.x "Lion"   Tom Keller
• [BioC] OS X 10.7.x "Lion"   Dan Tenenbaum
• [BioC] OS X 10.7.x "Lion"   Nicolas Delhomme
• [BioC] RE : RE : Optimisation   Simon Noël
• [BioC] EBImage package   Jordi van Gestel
• [BioC] EBImage package   Dan Tenenbaum
• [BioC] Use probesets with highest baseline expression for differntial gene   Gordon K Smyth
• [BioC] Testing for differential expression variability with edgeR   Gordon K Smyth
• [BioC] GO Analysis for Mouse Exon Array   Benilton Carvalho
• [BioC] Limma package for Agilent microarray Image Analysis   Karthik K N
• [BioC] warning in lumi   Francesco Mancuso
• [BioC] Finding coding SNPs with predictCoding   Alex Gutteridge
• [BioC] how split a matrix   Ali Mohammadian
• [BioC] warning in lumi   Martin Morgan
• [BioC] how split a matrix   Yuan Hao
• [BioC] PostForm() with KEGG   Ovokeraye Achinike-Oduaran
• [BioC] how split a matrix   Martin Morgan
• [BioC] limma: to pair or not to pair?   Aaron Mackey
• [BioC] Finding coding SNPs with predictCoding   Valerie Obenchain
• [BioC] strange error message with arrayQualityMetrics   ying chen
• [BioC] making use of the Apis mellifera BeeBase assembly 4 data in goseq   Hervé Pagès
• [BioC] PostForm() with KEGG   Duncan Temple Lang
• [BioC] Error in GAGE analysis   Javerjung Sandhu
• [BioC] Error in GAGE analysis, help URGENTLY required   Javerjung Sandhu
• [BioC] making use of the Apis mellifera BeeBase assembly 4 data in goseq   Alicia Oshlack
• [BioC] Goseq plot   Alpesh Querer
• [BioC] miRNA- KEGG   Ali Mohammadian
• [BioC] reference letter for R/Bioconductor   Zhi Zhang
• [BioC] Fwd: miRNA- KEGG   Vincent Carey
• [BioC] strange error message with arrayQualityMetrics   Wolfgang Huber
• [BioC] Goseq plot   Alicia Oshlack
• [BioC] [R] tapply for enormous (>2^31 row) matrices   Gabor Grothendieck
• [BioC] Use probesets with highest baseline expression for differntial gene expression in LIMMA   Ekta Jain
• [BioC] PostForm() with KEGG   Ovokeraye Achinike-Oduaran
• [BioC] miRNA- KEGG   James F. Reid
• [BioC] Updated affy package? ReadAffy/ AffyBatch has changed and breaks my pipeline!   Benjamin Otto
• [BioC] PostForm() with KEGG   Ovokeraye Achinike-Oduaran
• [BioC] Help with promoter analysis   Davy
• [BioC] Help with promoter analysis   Alex Gutteridge
• [BioC] Help with promoter analysis   Yuan Hao
• [BioC] PostForm() with KEGG   Duncan Temple Lang
• [BioC] statistical test help -RT-PCR data?   John Alexander
• [BioC] PostForm() with KEGG   Ovokeraye Achinike-Oduaran
• [BioC] Help with promoter analysis   Davy
• [BioC] Volcano plot   saikouy bah
• [BioC] Help with promoter analysis   Alex Gutteridge
• [BioC] Help with promoter analysis   Yuan Hao
• [BioC] heatmap.2 with different colour ranges   Wendy Qiao
• [BioC] Odd warning in simpleaffy, using quality control   David Westergaard
• [BioC] how to cluster transcripts of one gene   wang peter
• [BioC] Goseq plot   Alpesh Querer
• [BioC] arrayQualityMetrics: huge object size!?   Shi, Tao
• [BioC] FW: Error in GAGE analysis, help URGENTLY required   Javerjung Sandhu
• [BioC] Making use of the Apis mellifera assembly 2 data in goSeq   Corby, Vanessa
• [BioC] heatmap.2 with different colour ranges   Mercier Eloi
• [BioC] newbie subset question   Tom Keller
• [BioC] Odd warning in simpleaffy, using quality control   Maciej Jończyk
• [BioC] convert "Genome_intervals_stranded" to "Genome_intervals"? (girafe)   karlerhard at berkeley.edu
• [BioC] newbie subset question   Ben Tupper
• [BioC] Making use of the Apis mellifera assembly 2 data in goSeq   Hervé Pagès
• [BioC] Use probesets with highest baseline expression for differntial gene expression in LIMMA   James W. MacDonald
• [BioC] convert "Genome_intervals_stranded" to "Genome_intervals"? (girafe)   Nicolas Delhomme
• [BioC] Making use of the Apis mellifera assembly 2 data in goSeq   Hervé Pagès
• [BioC] how to get gene list for given GO terms?   Ou, Jianhong
• [BioC] arrayQualityMetrics: huge object size!?   Wolfgang Huber
• [BioC] Volcano plot   Wolfgang Huber
• [BioC] Strand information for dbSNP packages   Alex Gutteridge
• [BioC] Standard error and confidence intervals in DESeq?   Wolfgang Huber
• [BioC] Goseq plot   Alicia Oshlack
• [BioC] problems with "cannot allocate vector of size.."   Manuela Di Russo
• [BioC] Aroma query (Follow up to thread: \"Reading 5000 celfiles with ReadAffy\" )   Saif Ur-Rehman [guest]
• [BioC] Odd warning in simpleaffy, using quality control   David Westergaard
• [BioC] PostForm() with KEGG   Ovokeraye Achinike-Oduaran
• [BioC] PostForm() with KEGG   Ovokeraye Achinike-Oduaran
• [BioC] PostForm() with KEGG   Martin Morgan
• [BioC] Finding coding SNPs with predictCoding   Valerie Obenchain
• [BioC] report a possible bug of   wang peter
• [BioC] report a possible bug of   Martin Morgan
• [BioC] arrayQualityMetrics: huge object size!?   Shi, Tao
• [BioC] Making use of the Apis mellifera assembly 2 data in goSeq   Hervé Pagès
• [BioC] Making use of the Apis mellifera assembly 2 data in goSeq   Corby, Vanessa
• [BioC] GAGE heatmap pdf question...   Alan Derr
• [BioC] problems with "cannot allocate vector of size.."   Wolfgang Huber
• [BioC] Making use of the Apis mellifera assembly 2 data in goSeq   Hervé Pagès
• [BioC] Odd warning in simpleaffy, using quality control   Maciej Jończyk
• [BioC] dbSNP strand information   Alex Gutteridge
• [BioC] problem creating own org.Ss.eg.db   Hooiveld, Guido
• [BioC] RE : problems with "cannot allocate vector of size.."   Simon Noël
• [BioC] GAGE Question   Javerjung Sandhu
• [BioC] Strand information for dbSNP packages   Valerie Obenchain
• [BioC] Making use of the Apis mellifera assembly 2 data in goSeq   Corby, Vanessa
• [BioC] Strand information for dbSNP packages   Hervé Pagès
• [BioC] GAGE Package: Problem with Affymetrix hg u133 plus 2 probeset IDs conversion to Gene names or vice versa   Javerjung Sandhu
• [BioC] GAGE Package: Problem with Affymetrix hg u133 plus 2 probeset IDs conversion to Gene names or vice versa   Javerjung Sandhu
• [BioC] getGEO error?   Hendrik Falk
• [BioC] getGEO error?   James F. Reid
• [BioC] PostForm() with KEGG   Ovokeraye Achinike-Oduaran
• [BioC] Use probesets with highest baseline expression for differntial gene expression in LIMMA   Ekta Jain
• [BioC] statistical test help -RT-PCR data?   James Perkins
• [BioC] countOverlaps within Mode Counting   Dario Strbenac
• [BioC] GAGE heatmap pdf question...   Alan Derr
• [BioC] Warning of function "ncbiTaxonomy"   吴春燕
• [BioC] beadarray vignette has broken code in R2.14.1?   Henriquez, Nick
• [BioC] summarizeOverlaps vs countOverlaps   swaraj basu
• [BioC] how to get gene list for given GO terms?   Martin Morgan
• [BioC] about GO analysis   Zhi Zhang
• [BioC] how to get gene list for given GO terms?   Ou, Jianhong
• [BioC] Aroma query (Follow up to thread: \"Reading 5000 celfiles with ReadAffy\" )   Henrik Bengtsson
• [BioC] Strand information for dbSNP packages   Valerie Obenchain
• [BioC] summarizeOverlaps vs countOverlaps   Valerie Obenchain
• [BioC] adding factors to a data frame from a dataframe   Tom Keller
• [BioC] how to get gene list for given GO terms?   Martin Morgan
• [BioC] reading with lumi   Ed Siefker
• [BioC] adding factors to a data frame from a dataframe   Martin Morgan

Last message date: Wed Feb 29 23:53:53 CET 2012
Archived on: Sat Mar 3 09:44:27 CET 2012

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