September 2006 Archives by thread
Starting: Fri Sep 1 09:57:30 CEST 2006
Ending: Sat Sep 30 04:55:25 CEST 2006
Messages: 342
- [BioC] Rgraphviz - neato layout - edge weights have no effect
Franz Quehenberger
- [BioC] Nimblegen data: oligo, affy, limma?
J.delasHeras at ed.ac.uk
- [BioC] nnNorm loading problem
D.Enrique ESCOBAR ESPINOZA
- [BioC] (1) R/Splus Advanced Programming, NYC, Sept 11-12 (2) Regression Modeling Strategies in R/Splus, Sept 28-29
Sue Turner
- [BioC] convert library for microarrays data
Seth Falcon
- [BioC] Scripts to handle array CGH data files from NimbleGen
Todd Richmond
- [BioC] limma subsetting issue
Ariel Chernomoretz
- [BioC] Degradation plots - Affy package
martin doherty
- [BioC] Hostname bug?
Taejoon Kwon
- [BioC] genefilter - construct your own test
Lina Hultin-Rosenberg
- [BioC] Degradation plots - Affy package
Jordi Altirriba Gutiérrez
- [BioC] seqinr package - choosebank() function not connecting
Jabez Wilson
- [BioC] about packages GO, Gostats,...
Martin Olivier
- [BioC] R: Degradation plots - Affy package
Graeme Smethurst
- [BioC] Question on AffyBatch
Gunther Höning
- [BioC] BioC normalisations for small array 2 colour data?
Dan Swan
- [BioC] X11 problem
D.Enrique ESCOBAR ESPINOZA
- [BioC] Error loading tcltk for tkWidgets and widgetTools on duo Intel Mac under OS X
John E. Cornell, Ph.D.
- [BioC] Error loading tcltk for tkWidgets and widgetTools on duo Intel Mac under OS X
John Zhang
- [BioC] Problem with simpleaffy for poplar: "incorrect number of dimensions" with pairwise.comparison
Olivia Wilkins
- [BioC] Recommendation for limma?
Lana Schaffer
- [BioC] annotations for Codelink arrays
Normand Richard
- [BioC] scipt help
marco fabbri
- [BioC] x11() failure on recent R builds
Ross Lazarus
- [BioC] BioC normalisations for small array 2 colour data?
Gordon Smyth
- [BioC] BioC normalisations for small array 2 colour data?
martin.schumacher at novartis.com
- [BioC] Exclude individual probes before normalization
Dana Wohlbach
- [BioC] medline
Andrej Kastrin
- [BioC] Beginner's Q: Where to start given so many packages?
SH_73
- [BioC] Proposed change to limma::topTable API, feedback requested
Gordon Smyth
- [BioC] summarizing probe intensites before or after normalization- 1. how to do with RMA 2. Opinions?
k. brand
- [BioC] tilingArray - problem calculating confidence intervals
Krys Kelly
- [BioC] summarizing probe intensites before or after normalization- 1. how to do with RMA 2. Opinions?
Ben Bolstad
- [BioC] summarizing probe intensites before or after normalization- 1. how to do with RMA 2. Opinions?
James W. MacDonald
- [BioC] Segmentation Demo - problem in normalization
Krys Kelly
- [BioC] summarizing probe intensites before or after normalization- 1. how to do with RMA 2. Opinions?
James W. MacDonald
- [BioC] filter high-throughput microarray data with noise
Weiwei Shi
- [BioC] How to handle 2-channel array that is duplicated on a slide
Noah Cohen
- [BioC] limma help - choosing an approach
john seers (IFR)
- [BioC] heatmap - changing title size
Lina Hultin-Rosenberg
- [BioC] about plot rglist
James W. MacDonald
- [BioC] globaltest question
mike Ad.
- [BioC] globaltest question
Oosting, J. (PATH)
- [BioC] tilingArray - plotAlongChrom problem
Krys Kelly
- [BioC] drosphila2PATH question
ariel at df.uba.ar
- [BioC] drosphila2PATH question
Nianhua Li
- [BioC] install biomaRt failed - configuration failed for XML and RCurl
zhihua li
- [BioC] retrieving upstream/intronic sequences using biomaRt
Shamit Soneji
- [BioC] hclust - order of rows/columns
Lina Hultin-Rosenberg
- [BioC] topTable gene list
daphne mouzaki (RI)
- [BioC] about filtering genes from exprSet by names
yanju
- [BioC] biomaRt: connection stopping
J.delasHeras at ed.ac.uk
- [BioC] adding rowname to exprset or matrix
yanju
- [BioC] 4 replicates, of 3 tissues- one good hyb (2xreps), one bad hyb (2xreps). Best way forward?
k. brand
- [BioC] [biocpkgs] suggestions on package matchprobes
Robert Gentleman
- [BioC] Question on read.probematix
Gunther Höning
- [BioC] Finding similarities and differences for more than one catergory
Daniel Brewer
- [BioC] loess and limma
john seers (IFR)
- [BioC] Top gene list
daphne mouzaki (RI)
- [BioC] limma novice seeks guidance: 17 comparisons among 2 groups (size 4 & 8)
Paul Shannon
- [BioC] EBImage information resource
Oleg Sklyar
- [BioC] Bioconductor package for Affymetrix Exon arrays.
Khan, Sohail
- [BioC] cdf for ATH1 array
William Robert Swindell
- [BioC] Problem obtaining QC statistics from 'simpleaffy'
Alvord, Greg (DMS) [Contr]
- [BioC] PC/Mac version-checking inside of R
Simon Lin
- [BioC] limma help - choosing an approach
Gordon Smyth
- [BioC] the mm argument for function "buildCdfEnv.matchprobes" in "altcdfenvs" package
li lilingdu
- [BioC] limma and print tip groups
michael baron (IAH-P)
- [BioC] limma and print tip groups
Gordon Smyth
- [BioC] BIRD: New paper and submission deadline: September 22
Prof.Roland Wagner
- [BioC] svm rfe
daniela marconi
- [BioC] [biocpkgs] suggestions on package matchprobes
Xinxia Peng
- [BioC] combineAffybatch and mas5
SKALKO at clinic.ub.es
- [BioC] method for removing consistent technical bias?
k. brand
- [BioC] normalize.quantiles.robust: how to implement weights for different arrays?
k. brand
- [BioC] Help on interpreting PPDE values
Kartik Pappu
- [BioC] error when restoring workspace containing exprSet objects
Christos Hatzis
- [BioC] limma help - choosing an approach
Gordon Smyth
- [BioC] heatmap_2
Ron Ophir
- [BioC] Tcltk issue on Mac OS X Tiger solved
John E. Cornell, Ph.D.
- [BioC] Diagonal LDA in MLInterfaces
Christos Hatzis
- [BioC] pca.legend function of package affycoretools
Kimpel, Mark William
- [BioC] outlier removal from gene chip
Weiwei Shi
- [BioC] get.annotation problem with vitis vinifera
Tarun Nayar
- [BioC] install biomaRt failed - configuration failed for XML and RCurl
zhihua li
- [BioC] knn.imput and prcomp error
Ingrid H.G. Østensen
- [BioC] Cluster in R
Valentina Mirisola
- [BioC] "normalize.quantiles.robust" produces the SAME intensities from different weights?!
k. brand
- [BioC] Workshop on Statistics for Biomolecular Data Integration and Modeling 2007
Darlene Goldstein
- [BioC] bicluster
Weiwei Shi
- [BioC] genotyping RLMM probe level model?
Justin Borevitz
- [BioC] different results because of an upgrade
Ingrid H.G. Østensen
- [BioC] (no subject)
daphne mouzaki (RI)
- [BioC] (no subject)
daphne mouzaki (RI)
- [BioC] removeEdge: strange error
Dan Bebber
- [BioC] Has anyone implemented Friedman's Test for AffyBatch?
k. brand
- [BioC] parseGEO stack at first.entity <- findFirstEntity(con)
rcaloger
- [BioC] cdfenv files ATTN: James McDonald
Andrew Van Brunt
- [BioC] cdfenv files ATTN: James McDonald part II
Andrew Van Brunt
- [BioC] Table values in R
daphne mouzaki (RI)
- [BioC] installation of made4 package
Weiwei Shi
- [BioC] two questions associated with heatmap
Weiwei Shi
- [BioC] a question for Metadata package: hgu133a
Shi, Tao
- [BioC] table values
daphne mouzaki (RI)
- [BioC] how to deal with a complete pooling design?
michael waisberg
- [BioC] a question for Metadata package: hgu133a
Maria Stalteri
- [BioC] BioInfoSummer2006
Sylvain FORET
- [BioC] CDF and annotation package for populus
=?gb2312?B?tqHD98ir?=
- [BioC] how to add gene name in limma
Bing Zhang
- [BioC] creating platformdesign affy_250k nsp
Roel Verhaak
- [BioC] new CDF env from combineAffyBatch is not recognized
jean-louis.ruelle at gskbio.com
- [BioC] table values
Johannes Freudenberg
- [BioC] having a problem loading Rgraphviz with Intel Mac
Jen Buhay
- [BioC] Error:"arrayQuality"
Debora Frigi Rodrigues
- [BioC] separation of profiles
Lana Schaffer
- [BioC] batch effect on variances
Lana Schaffer
- [BioC] (no subject)
daphne mouzaki (RI)
- [BioC] Difference between MAS 5.0 via R and GCOS
Novak Jaroslav
- [BioC] Reading 'rgu34a' probeset - D37951UTR#1_at
Sharon
- [BioC] question about outlier removal
James Anderson
- [BioC] data set 'yeastCC' not found in: data(yeastCC)
Glazko, Galina
- [BioC] data set 'yeastCC' not found in: data(yeastCC)
Glazko, Galina
- [BioC] online time series microarray data
James Anderson
- [BioC] normalize AffyBatch object by control spots?
Jenny Drnevich
- [BioC] having a problem loading Rgraphviz with Intel Mac
Seth Falcon
- [BioC] RMA with few arrays
Ann Hess
- [BioC] Situation of the legend in the plotPCA of the affycoretools library
Jordi Altirriba Gutiérrez
- [BioC] Affy SNPs annotation package
Nicolas Servant
- [BioC] how to add gene name in limma
Gordon Smyth
- [BioC] reference question
Dario Greco
- [BioC] GEOquery : 'cannot open URL'
Chaitanya Acharya
- [BioC] SAM with censored survival data on exprSet
mpg33 at drexel.edu
- [BioC] Why "M" values?
Jenny Drnevich
- [BioC] binary CEL file gunzipped
D.Enrique ESCOBAR ESPINOZA
- [BioC] Bioinformatics Faculty Positions
Thomas Girke
- [BioC] Question about "kidpack" installation
=?GB2312?Q?=CD=F5=CA=A4=BE=FC?=
Last message date:
Sat Sep 30 04:55:25 CEST 2006
Archived on: Mon Oct 2 17:29:55 CEST 2006
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