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DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
DiffBind
ATACSeq
40 minutes ago
Pierre Lindenbaum
▴ 10
0
votes
0
replies
10
views
Materials for liposomes
alabaster.schemas
metaMSdata
3 hours ago
bocsciences
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0
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24
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Trimming a section of a scaffold from a genome
Biostrings
GenomeAssembly
updated 14 hours ago by
James W. MacDonald
65k • written 16 hours ago by
Karen
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0
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3
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140
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PCA of different bacterial species
DESeq2
updated 23 hours ago by
Michael Love
41k • written 1 day ago by
Laura
▴ 10
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8
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Microarray Limma Model fitting and DEG
limma
DGEanalysis
updated 7 hours ago by
Gordon Smyth
50k • written 1 day ago by
Amit
• 0
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2
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119
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DESeq2 "Contrast" option
DESeq2
contrast
DifferentialExpression
6 days ago • updated 20 hours ago
Chanderkant Chaudhary
• 0
2
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3
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351
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What benchmark should I use for setting the EdgeR filterByExpr min.count parameter?
edgeR
DifferentialExpression
updated 12 hours ago by
Gordon Smyth
50k • written 7 days ago by
Jack S.
▴ 50
1
vote
3
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164
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miRTarRnaseq library
miRNATarget
mirTarRnaSeq
updated 8 hours ago by
mercedeh.movassagh
▴ 10 • written 8 days ago by
María
• 0
4
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7
replies
315
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DEG Filtering
MicroarrayData
limma
Genefiltering
updated 14 hours ago by
Gordon Smyth
50k • written 11 days ago by
Amit
• 0
11
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4
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7.2k
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Theoretical WGCNA Question
WGCNA
Theory
Scale-Free Topology
updated 22 hours ago by
Peter Langfelder
★ 2.9k • written 9.0 years ago by
brohawndg
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Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Comment: DEG Filtering
by
Gordon Smyth
50k
I already know that you using CEL files because you need them to perform RMA normalization. Yes, you should follow the advice I have alread…
Votes
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
Answer: error in ChAMP loading file
Circumvent creating .ff files in the working directory when using genotype.Illumina() function
Answer: Problem with maplot {affy} method when using rma {affy} method output as its inp
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