Showing : independent filtering • reset
0
votes
2
replies
2.0k
views
Very high threshold for independent filtering
deseq2 mirna independent filtering
updated 7.0 years ago by 43k • written 7.0 years ago by • 0
0
votes
1
reply
1.5k
views
Independent filtering very different across different contrasts
deseq2 independent filtering
updated 7.7 years ago by 43k • written 7.7 years ago by • 0
0
votes
6
replies
2.2k
views
contamination and DESeq2 performance
deseq2 low count genes independent filtering
updated 8.2 years ago by ▴ 20 • written 8.2 years ago by ▴ 20
0
votes
0
replies
1.8k
views
Specific considerations in RNA-Seq DE analysis with edgeR pipeline for a TCGA dataset starting with HTSeq counts
edgeR rnaseq DEanalysis TCGA independent filtering
8.2 years ago svlachavas ▴ 840
4
votes
11
replies
5.9k
views
edgeR cpm filter
edger independent filtering multiple factor design cpm
updated 8.4 years ago by 53k • written 8.4 years ago by • 0
8
votes
3
replies
2.7k
views
Why edgeR::aveLogCPM() is simlar to log2(rowMeans(cpm)) instead of rowMeans(cpm(y, log=TRUE))
edgeR rnaseq limma independent filtering
8.4 years ago Robert Castelo ★ 3.4k
3
votes
3
replies
2.3k
views
csaw: how does unequal sample size affect filtering filterWindows step
csaw differential binding analysis sample size independent filtering statistical power
updated 8.5 years ago by ★ 29k • written 8.5 years ago by • 0
0
votes
3
replies
4.0k
views
DESeq2 independent filtering not working
deseq2 independent filtering cookscutoff
8.8 years ago tamsyn.derrick • 0
2
votes
3
replies
14k
views
Remove genes with very low counts for all samples or let DESeq2 perform independent filtering?
deseq2 independent filtering lowcountgenes
updated 9.9 years ago by 43k • written 9.9 years ago by ▴ 30
5
votes
4
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9.0k
views
edgeR cpm filter with >1 factor
edger cpm multiple factor design independent filtering
10.1 years ago dietahanson ▴ 30
9
votes
6
replies
2.4k
views
Independent filtering with unequal group sizes?
independent filtering edger deseq2
updated 10.6 years ago by ★ 29k • written 10.6 years ago by ★ 7.9k
3
votes
13
replies
3.3k
views
Design and independent filtering of patient RNA-seq data
differential gene expression deseq2 design independent filtering limma
updated 10.7 years ago by 68k • written 10.7 years ago by ▴ 110
18
votes
12
replies
5.1k
views
Low-count filtering with uneven sequencing depth between samples?
edgeR deseq2 rna-seq independent filtering
updated 10.7 years ago by 43k • written 10.7 years ago by ★ 7.9k
6
votes
4
replies
3.5k
views
discrepance in DESeq2 results with different design structures
deseq2 differential expression independent filtering pre-filtering design matrix
10.8 years ago Assa Yeroslaviz ★ 1.5k
1
vote
4
replies
2.4k
views
Selection of appropriate gene filtering method for discovering statistically significant genes for Affymetrix arrays
bioconductor differential gene expression independent filtering
11.1 years ago svlachavas ▴ 840
2
votes
3
replies
19k
views
Removing genes with very low counts in all samples before run DESeq
deseq2 statistical power independent filtering
11.3 years ago alejandro.colaneri ▴ 20
0
votes
1
reply
3.5k
views
DESeq2 independent filtering using filter=rv
deseq2 INDEPENDENT FILTERING
updated 11.4 years ago by 43k • written 11.4 years ago by • 0
17 results • Page 1 of 1
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Comment: Question on processing compound protein groups in limpa by JKim • 0
Many thanks. I appreciate your advice.
Answer: Question on processing compound protein groups in limpa by Gordon Smyth 53k
Different people have different ways of dealing with compound protein groups. You could just leave them in the analysis, in which case limp…
Answer: Correct usage of limpa for protein input by Gordon Smyth 53k
limpa can work on protein-level quantifications, but they must be intensity-based and must be on the log scale. From what I read (<https://…
Comment: A problem occurs when running the monocle2 by a2a2hset32aa • 0
Troubleshooting monocle2 errors in R 4.5.1 often points to package incompatibilities, particularly with newer versions of igraph. For resea…
Comment: Deadline Extended: EuroBioC2026 Call for Abstracts by a2a2hset32aa • 0
Attending EuroBioC2026 is an excellent way for researchers to explore the intersection of technology and biology. For those seeking high qu…
Votes
Answer: Question on processing compound protein groups in limpa
Answer: Correct usage of limpa for protein input
Answer: Correct usage of limpa for protein input
Answer: Correct usage of limpa for protein input
A: Interpretaion of dendrogram height in WGCNA?
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