1
vote
9
replies
3.7k
views
BLAST search sequence for species ID from R?
Biostrings PROcess Biostrings PROcess
updated 16.0 years ago by ▴ 550 • written 16.0 years ago by ▴ 40
0
votes
4
replies
2.4k
views
hgu133plus2cdfSYMBOL not found
Cancer hgu133plus2 probe affy Cancer hgu133plus2 probe affy
updated 16.0 years ago by ▴ 630 • written 16.0 years ago by ▴ 60
0
votes
2
replies
1.4k
views
Heatmaps of K-clusters don't Match Expression
Clustering Clustering
updated 16.0 years ago by ★ 13k • written 16.0 years ago by ▴ 230
0
votes
1
reply
1.2k
views
Ringo/Starr getProfiles function
Annotation Starr Annotation Starr
updated 16.0 years ago by ▴ 50 • written 16.0 years ago by ▴ 410
0
votes
4
replies
1.6k
views
Patent issues of classification algorithms
Microarray Microarray
updated 16.0 years ago by 21k • written 16.0 years ago by ▴ 110
0
votes
0
replies
837
views
bug in beadarray::setWeights
beadarray beadarray
16.0 years ago Mehrdad Shamsi ▴ 30
0
votes
13
replies
2.6k
views
problem with data processing in R
PROcess GLAD PROcess GLAD
updated 16.0 years ago by ★ 1.7k • written 16.0 years ago by ▴ 170
0
votes
1
reply
1.2k
views
Ringo/Starr getProfiles function
biomaRt Ringo Starr biomaRt Ringo Starr
updated 16.0 years ago by ★ 13k • written 16.0 years ago by ▴ 410
0
votes
0
replies
953
views
[Bioc-devel] BSgenome error
GO BSgenome BSgenome IRanges ChIPpeakAnno GO BSgenome BSgenome IRanges ChIPpeakAnno
16.0 years ago Tony Chiang ▴ 570
0
votes
1
reply
1.8k
views
tryCatch: go on executing after a warning message
GO GO
updated 16.0 years ago by 25k • written 16.0 years ago by ▴ 840
0
votes
0
replies
1.5k
views
manova contrast.matrix
maanova maanova
16.0 years ago David ▴ 860
0
votes
1
reply
2.1k
views
installing xcms package for R 64-bit
GO Cancer cdf xcms GO Cancer cdf xcms
updated 16.0 years ago by ▴ 10 • written 16.0 years ago by ▴ 40
0
votes
1
reply
1.2k
views
TSS Regions
Transcription IRanges Transcription IRanges
updated 16.0 years ago by ★ 4.3k • written 16.0 years ago by ▴ 130
0
votes
0
replies
1.0k
views
Limma - replicate Fold change values - rank product analysis
limma limma
16.0 years ago Neel Aluru ▴ 460
0
votes
0
replies
1.1k
views
choosing explanatory variables for linear model in limma
GO limma PROcess GO limma PROcess
16.0 years ago Yannick Wurm ▴ 220
0
votes
1
reply
1.6k
views
problem illumina annotation with lumi
Microarray annotate convert lumi Microarray annotate convert lumi
16.0 years ago Md.Mamunur Rashid ▴ 260
0
votes
0
replies
1.3k
views
Limma- deleting control probes from differential expression analysis
Transcription ASSIGN Transcription ASSIGN
16.0 years ago Neel Aluru ▴ 460
0
votes
5
replies
1.7k
views
IRanges causes bug in complete.cases
Regression IRanges Regression IRanges
updated 16.0 years ago by ★ 11k • written 16.0 years ago by ★ 6.5k
0
votes
2
replies
1.2k
views
Question on PROcess package
PROcess PROcess
updated 16.0 years ago by ▴ 20 • written 16.1 years ago by ▴ 350
0
votes
0
replies
957
views
Hapmap miRNA expression data
miRNA HapMap ArrayExpress miRNA HapMap ArrayExpress
16.0 years ago Paul Geeleher ★ 1.3k
0
votes
3
replies
1.7k
views
LIMMA experimental design affecting modelmatrix
Microarray limma a4 Microarray limma a4
updated 16.0 years ago by 68k • written 16.0 years ago by ▴ 60
0
votes
0
replies
1.6k
views
SPIA, hacked to run with only selected pathways
SystemsBiology Pathways Cancer SPIA SystemsBiology Pathways Cancer SPIA
16.0 years ago Tarca, Adi ▴ 570
0
votes
3
replies
1.7k
views
Hypergeometric Testing questions
GO GOstats Category GO GOstats Category
updated 16.0 years ago by ★ 7.4k • written 16.0 years ago by ▴ 840
0
votes
1
reply
1.1k
views
Please Help with Starr Package
Normalization Starr Normalization Starr
updated 16.0 years ago by 25k • written 16.0 years ago by ▴ 410
0
votes
1
reply
1.4k
views
Please Help with rMAT: NAs in Enrich Object
Normalization Preprocessing rtracklayer IRanges rMAT Normalization Preprocessing IRanges
updated 16.0 years ago by 25k • written 16.0 years ago by ▴ 410
0
votes
2
replies
2.2k
views
problems fitting model using manova
Microarray Microarray
updated 16.0 years ago by 25k • written 16.0 years ago by ▴ 860
0
votes
4
replies
1.8k
views
Agi4x44PreProcess
convert GEOquery Agi4x44PreProcess convert GEOquery Agi4x44PreProcess
updated 16.0 years ago by ▴ 460 • written 16.1 years ago by ★ 1.3k
0
votes
0
replies
994
views
bug fix in globaltest
globaltest globaltest
16.0 years ago Goeman, J.J. MSTAT ▴ 150
0
votes
0
replies
1.1k
views
lambda and other questions related to siggenes
GO hgu133a siggenes GO hgu133a siggenes
16.0 years ago John Lande ▴ 280
0
votes
2
replies
1.8k
views
Query related to topGene functionality in RankProd library.
Cancer probe RankProd Cancer probe RankProd
updated 16.0 years ago by ▴ 20 • written 16.0 years ago by ▴ 20
0
votes
1
reply
589
views
[Bioc-sig-seq] finding consensus sites in a set of DNA sequences
16.0 years ago Wolfgang Huber ★ 13k
0
votes
4
replies
1.9k
views
Windows binary for GEOquery (R 2.10.0)
GEOquery GEOquery
updated 16.0 years ago by ▴ 450 • written 16.0 years ago by ▴ 50
0
votes
2
replies
1.5k
views
boxplot() change of colors
updated 16.0 years ago by ▴ 480 • written 16.0 years ago by ▴ 310
0
votes
5
replies
3.8k
views
Error in .local(.Object, ...) : could not find function "checkClass"
Biobase Biobase
updated 16.0 years ago by 25k • written 16.0 years ago by ▴ 80
0
votes
2
replies
1.5k
views
problem detected during utilization of LimmaGUI
Microarray limmaGUI Microarray limmaGUI
updated 16.0 years ago by ★ 7.4k • written 16.0 years ago by ▴ 10
0
votes
1
reply
2.7k
views
getBM
updated 16.0 years ago by ▴ 600 • written 16.0 years ago by ▴ 810
0
votes
0
replies
1.8k
views
unexpected genes names list using getBM{biomaRt}
Alignment convert biomaRt Alignment convert biomaRt
16.0 years ago steffen@stat.Berkeley.EDU ▴ 600
0
votes
1
reply
796
views
ChIPpeakAnno: BED2RangedData
updated 16.0 years ago by 25k • written 16.0 years ago by ★ 4.3k
0
votes
2
replies
1.6k
views
genereating correlation matrix from gene expression data
Cancer Cancer
updated 16.0 years ago by ★ 3.4k • written 16.0 years ago by ▴ 120
0
votes
4
replies
1.6k
views
can't install with biocLite
updated 16.0 years ago by 6.7k • written 16.0 years ago by ▴ 40
0
votes
3
replies
1.9k
views
RpsiXML issues with latest Biogrid release files
GO Organism Arabidopsis thaliana graph RpsiXML GO Organism Arabidopsis thaliana graph
updated 16.0 years ago by ▴ 340 • written 16.0 years ago by ▴ 60
0
votes
0
replies
1.4k
views
Query related to topGene functionality in RankProd library.
probe RankProd probe RankProd
16.0 years ago Rohan M ▴ 20
0
votes
1
reply
1.3k
views
org.Hs.eg "gene_info" table seems to be worng
GO GO
updated 16.0 years ago by ★ 7.2k • written 16.1 years ago by ▴ 130
0
votes
1
reply
1.9k
views
KEGGgraph bug
Pathways Organism SIM KEGGgraph Pathways Organism SIM KEGGgraph
updated 16.0 years ago by ★ 7.2k • written 16.0 years ago by ▴ 270
0
votes
2
replies
1.6k
views
probe to entrezID mapping with aafLocusLink
GO hgu133plus2 probe annaffy convert GO hgu133plus2 probe annaffy convert
updated 16.0 years ago by 68k • written 16.0 years ago by ▴ 10
0
votes
3
replies
1.9k
views
getBM no connection but listMarts has
SNP biomaRt Vega SNP biomaRt Vega
updated 16.0 years ago by 68k • written 16.0 years ago by ▴ 370
0
votes
1
reply
1.0k
views
custom CDF version 12.1.0 is released
cdf cdf
updated 16.0 years ago by ▴ 630 • written 16.1 years ago by ▴ 200
0
votes
5
replies
1.6k
views
expression set and paired designs
updated 16.0 years ago by ★ 6.0k • written 16.0 years ago by ▴ 860
0
votes
4
replies
1.6k
views
problems getting new intact networks from ppiData
16.1 years ago • updated 16.0 years ago Sara JC Gosline ▴ 60
0
votes
0
replies
1.6k
views
on the meaning and value of $stdev.unscaled in a limma's lmFitted MArrayLM object
GO hgug4112a probe GO hgug4112a probe
16.1 years ago Massimo Pinto ▴ 390
46,699 results • Page 688 of 934
Recent ...
Replies
Answer: segfault in edgeR glmQLFit by Gordon Smyth 53k
Dear Mark, Thank you for providing a reproducible example. I confirm that I can reproduce the segfault myself on my own computer. We will …
Answer: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink by aqeel • 0
Discover the pinnacle of Brazilian Jiu Jitsu gear at [Dragon][1] GI. [1]: https://dragongi.com/
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by Gordon Smyth 53k
I refered you to the DiffVar package 11 months ago. Did you consider it? Your clarification makes it clear that your issue is not with lim…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0
Thanks for the reply Gordon. I am also working on the project and have been tasked to reformulate and add some details. We're interested i…
Answer: How does contrasts.fit do in limma to extract comparisons with a model having in by Gordon Smyth 53k
The limma Users Guide explains how to test for interactions or to test for contrasts very easily. limma can work with any design matrix, bu…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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