July 2010 Archives by thread
Starting: Thu Jul 1 00:11:45 CEST 2010
Ending: Sat Jul 31 08:04:38 CEST 2010
Messages: 417
- [BioC] Error compiling GeneR package
Andrés Rogers
- [BioC] Clustering RNA-seq profiles using edgeR
Gordon K Smyth
- [BioC] Clustering RNA-seq profiles and DE analysis using edgeR
Gordon K Smyth
- [BioC] Problems with arrayQualityMetrics
Ingunn Berget
- [BioC] Network plot
Hernando Martínez
- [BioC] GO term enrichment
Assa Yeroslaviz
- [BioC] VSN package: vsnrma generate different values from the same data
Wolfgang Huber
- [BioC] Example on constructing AffyBatch object
Peng Yu
- [BioC] Error compiling GeneR package
Andrés Rogers
- [BioC] Need help with pdInfoBuilder package for human ST arrays
He, Yiwen (NIH/CIT) [C]
- [BioC] error from rsamtools on 1000 genomes
Sergii Ivakhno
- [BioC] about lumi support for Illumina HT-12 v4
Pan Du
- [BioC] AgiMicroRna and ComBat
Segal, Corrinne
- [BioC] unexpected behaviour of pairwiseAlignment() in Biostrings
Coghlan, Avril
- [BioC] mogene10stprobeset.db error
Maxim
- [BioC] mogene10stprobeset.db error
Vincent Carey
- [BioC] Question on Limma technical replicate
Leleacquario at libero.it
- [BioC] Question on Limma technical replicate
Leleacquario at libero.it
- [BioC] issues with xps filter
cstrato
- [BioC] error/problem with biomaRt gene symbol query
Sergii Ivakhno
- [BioC] edgeR question
chunlai at umich.edu
- [BioC] edgeR question
chunlai at umich.edu
- [BioC] Question on Limma technical replicate
Gordon K Smyth
- [BioC] Help reg Genome view
mahalakshmi sivamani
- [BioC] Limma for GoldenGate Methylation Cancer Panel I
Jinyan Huang
- [BioC] Problem in affypdnn package
Hasan, Ahmed Ryadh - hasar001
- [BioC] GSEABase and Broad Inst Sets
Iain Gallagher
- [BioC] installing 'lme4' package fails
Tim Smith
- [BioC] biomaRt Error : Affy Human Exon array annotation
Rashid, Mamunur
- [BioC] Limma for GoldenGate Methylation Cancer Panel I
Jinyan Huang
- [BioC] Problems substituting slot name with string variable
Edwin Groot
- [BioC] removing SNP probes from Drosophila 2 microarray
Eli Moss
- [BioC] how to find out whether some Affy probe sets are Alu contaminated?
James Anderson
- [BioC] Exon ST expression data from GEO
Jeremiah H. Savage
- [BioC] Rgraphviz: flexible node sizes
Quin Wills
- [BioC] Nimblegen 385K CpG Island Plus Promoter Arrays
Jinyan Huang
- [BioC] removal of genes with low expression values
Hernando Martínez
- [BioC] methylumi: cannot normalizeMethyLumiSet
Jinyan Huang
- [BioC] Help reg Genome view
James W. MacDonald
- [BioC] Retrieving MAQC data from GEO using GEOquery
Mark Dunning
- [BioC] error in plotKEGGGraph
Robert M. Flight
- [BioC] removal of probes called "Absent"
Hernando Martínez
- [BioC] Rgraphviz
Janet Higgins (JIC)
- [BioC] read.table doesn't read decimal places
Stefan Kroeger
- [BioC] GEO Series Matrix download problem and GEOquery
Sean Davis
- [BioC] methylumi: Quality Control
Jinyan Huang
- [BioC] GRanges, strange behavior when chromosomes don't match
Cei Abreu-Goodger
- [BioC] how to do probe set mapping between U133A and Gene 1.0 ST array
James Anderson
- [BioC] biomaRt bug - shuffling getBM headers and content
Nenad Bartonicek
- [BioC] SNP chip
Adrian Johnson
- [BioC] Normalization
Ning
- [BioC] Error importing XYS
Marcelo Brandão
- [BioC] no summary of GOHyperGResult
Robert M. Flight
- [BioC] error in nbinomTest from package DESeq
Andreia Fonseca
- [BioC] Help in setting up limma model
Casper Shyr
- [BioC] Rgraphviz in windows 7 - problem with GUI?
Neta Zuckerman
- [BioC] Replacing an AffyBatch probe set
Eli Moss
- [BioC] Affymetrix miRNA array normalization
Kamila Naxerova
- [BioC] Model variable optimisation
Tony McBryan
- [BioC] defining node positions in Rgraphviz
Robert M. Flight
- [BioC] Performing set ops with an IRanges object loaded with elementMetadata is like a shotgun, pointing at my foot.
Steve Lianoglou
- [BioC] Bioconductor / plotting SNPs, runs of homozygosity
Min-Han Tan
- [BioC] XYS from nimblegen
Marcelo Brandão
- [BioC] Error message working with ChIPpeakAnno
Zhu, Julie
- [BioC] "romer"ing and "roast"ing around gene sets
Robert M. Flight
- [BioC] Error in readBeadSummaryData
Jenny Drnevich
- [BioC] biomaRt
Fraser Sim
- [BioC] biomaRt
James W. MacDonald
- [BioC] GenomicFeatures: makeTranscriptDbFromUCSC on "refGene" supported?
Erik van den Akker
- [BioC] GenomicFeatures makeTranscriptDbFromUCSC on refGene supported?
Erik van den Akker
- [BioC] Exonmap to xmapcore
Fong Chun Chan
- [BioC] job opportunity for bioinformatics professional
Taylor, Scott
- [BioC] meta-analysis with P values
Laura Rodriguez Murillo
- [BioC] "romer"ing and "roast"ing around gene sets
Gordon K Smyth
- [BioC] Short survey concerning the use of software engineering in the field of High Performance Computing
Markus Schmidberger
- [BioC] CRytoscape: an early release
Paul Shannon
- [BioC] bug: subsetByOverlaps(GRangesList, GRanges)
Cei Abreu-Goodger
- [BioC] Annotation in Agi4x44PreProcess
Samantha England
- [BioC] Problem with extracting subset of samples for 500K in aroma affymetrix
Manisha Brahmachary
- [BioC] CRytoscape: an early release
Michael Lawrence
- [BioC] [BiozzDzC] Normalizationza
casey frankenberger
- [BioC] Concerning your response to "Error message working with ChIPpeakAnno"
Zhu, Julie
- [BioC] Is there some packages for RNA-seq data analysis?
Jinyan Huang
- [BioC] KEGG data missing from KEGG.db
Chris Fjell
- [BioC] TranscriptDb and genomicranges questions
Patrick Aboyoun
- [BioC] KEGG data missing from KEGG.db
Chris Fjell
- [BioC] filtering individual flagged values in Agi4x44PreProcess
Leslie M. Turner
- [BioC] mget plus regular expression
Marco Fabbri
- [BioC] Rsamtools: ScanBamParam IsUnmappedQuery flag
Thomas Unterthiner
- [BioC] flowQ on WinXP: Error in matrix for dimnames
Karin Breuer
- [BioC] qustion on heatmap
sidahmed BENABDERRAHMANE
- [BioC] [OT][job opening]
Tobias Verbeke
- [BioC] Rsamtools: Sorting BAM files
Thomas Unterthiner
- [BioC] Problem with illuminaMousev2BeadID.db
Yanji Xu
- [BioC] exonmap/xmapcore error
anupam sinha
- [BioC] the design matrix again
HuW at mskcc.org
- [BioC] Analysing DNA methylation microarrays in Bioconductor
Paul Geeleher
- [BioC] Problem with function limmaCtData in HTqPCR package: "leading minor of order 2 is not positive definite"
Bass, Kevin
- [BioC] problem about hgu133plus2 annotation
Gina Liao
- [BioC] htQPCR
David martin
- [BioC] heatmap.2 - change column & row locations; angle / rotate
Karl Brand
- [BioC] In limma, how to set quility weight for each spot.
Jinyan Huang
- [BioC] Heatmap.2 scale problems: Sacling inside the function gives different results than scaling outside!!!
Elmer Fernández
- [BioC] ShortRead QA
Alex Gutteridge
- [BioC] Biostrings - vcountPattern optimization
Erik Wright
- [BioC] the design matrix again
Gordon K Smyth
- [BioC] Open Postdoc Positions
Thomas Girke
- [BioC] downloading different kinds of microarray data
Alex Levitchi
- [BioC] building a refseq-based transcriptDb: warnings of interest?
Vincent Carey
- [BioC] Patch for sortBam functionality in Rsamtools
Thomas Unterthiner
- [BioC] beadarray illumina Human610-Quadv1_B.bpm
Nolwenn Le Meur
- [BioC] heatmap.2 - change column & row locations; angle / rotate
Amos Folarin
- [BioC] downloading different kinds of microarray data
Sean Davis
- [BioC] rtracklayer issues with other packages?
mattia pelizzola
- [BioC] next-generation sequencing and embryogenisis
ziping zhang
- [BioC] Problem for install DESeq
Jinyan Huang
- [BioC] problem using Alternative CDF environments, CdfEnvAffy
Hervé Pagès
- [BioC] browseURL
Yuan Jian
- [BioC] browseURL
Yuan Jian
- [BioC] Question on Hypergeometric P value generated from makeVennDiagram in ChIPpeakAnno
Noah Dowell
- [BioC] Problem with AnnotationDbi::loadAnnDbPkgIndex()
cstrato
- [BioC] Problem installing qpgraph
Joerg Linde
- [BioC] ChIP-chip sequence bias not removed
Edwin Groot
- [BioC] ChIP-chip sequence bias not removed
zacher at lmb.uni-muenchen.de
- [BioC] Nested Design (Again) & Subset WithinArray Correlation
Y. Osee Sanogo
- [BioC] Error in Heatmap: Could not find function "heatmap.2"
Samantha England
- [BioC] write.XStringView/write.XStringSet highly inefficient
Michael Dondrup
- [BioC] Nested Design (Again) & Subset WithinArray Correlation
Y. Osee Sanogo
- [BioC] biomaRt problem
anupam sinha
- [BioC] Enrichment analysis for chromosomes
Bhatti, Gaurav
- [BioC] Loading ontologies from OBO foundry?
stubben
- [BioC] Normalization of expression values
dorothyc
- [BioC] Illumina chip probe sequences
Peter Bazeley
- [BioC] Heatmaps for one sample?
Sarah Bonnin
- [BioC] write.XStringView/write.XStringSet highly inefficient (solved)
Michael Dondrup
- [BioC] xmapcore get intronic sequence
Stephen Taylor
- [BioC] Agi4x44PreProcess - Replicated Genes Error
Samantha England
- [BioC] Agi4x44PreProcess: INPUT DATA DOES NOT CONTAIN - Sequence and chr_coord SCANN THE DATA USING AFE 9.5.3.1 Error in read.AgilentFE(targets, makePLOT = FALSE)
Turner, Julia
- [BioC] A question on DESeq
sunghee OH
- [BioC] DESeq question correlation
Pete Shepard
- [BioC] Nested Design (Again) & Subset WithinArray Correlation
Gordon K Smyth
- [BioC] Convert arabidopsis TAIR6 coordinates to TAIR9?
Xiaohui Wu
- [BioC] Ringo and dye swaps
jbethune
- [BioC] Accessing attributes of object
David martin
- [BioC] GEOquery: GDS2MA failure
Philipp Pagel
- [BioC] beadarray methylation annotation question
Alice E. Arcury-Quandt
- [BioC] A question on baySeq
sunghee OH
- [BioC] FW: A software engineer/application developer position
Jianhua Zhang
- [BioC] A question on scaling normalization proposed by Mark Robinson Group
sunghee OH
- [BioC] Affy PA calls
Loren Engrav
- [BioC] Nested Design (Again) & Subset WithinArray Correlation
Gordon K Smyth
- [BioC] flowStats Plot quadrantGate Filter Result Smooth=FALSE
Aric Gregson
- [BioC] Affy PA calls
Loren Engrav
- [BioC] get full variance per gene from DESeq
Graham Thomas
- [BioC] Limit for chromosomal regions in biomaRt?
Christian Ruckert
- [BioC] FW: Software engineer/application developer position
John Zhang
- [BioC] Postdoctoral positions at Harvard
Edo Airoldi
- [BioC] FW: A software engineer/application developer position
John Zhang
- [BioC] FW: A software engineer/application developer position
John Zhang
- [BioC] Odd Plotting Behavior with lymphGate flowStats
Aric Gregson
- [BioC] arrayQualityMetrics and Bioconductor Case Studies
Chintanu
Last message date:
Sat Jul 31 08:04:38 CEST 2010
Archived on: Mon Aug 2 18:15:39 CEST 2010
This archive was generated by
Pipermail 0.09 (Mailman edition).