Showing : independent filtering • reset
0
votes
2
replies
1.0k
views
Very high threshold for independent filtering
deseq2 mirna independent filtering
updated 4.8 years ago by 41k • written 4.8 years ago by • 0
0
votes
1
reply
589
views
Independent filtering very different across different contrasts
deseq2 independent filtering
updated 5.5 years ago by 41k • written 5.5 years ago by • 0
0
votes
6
replies
1.2k
views
contamination and DESeq2 performance
deseq2 low count genes independent filtering
updated 6.0 years ago by ▴ 20 • written 6.0 years ago by ▴ 20
0
votes
0
replies
1.3k
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
6.0 years ago svlachavas ▴ 820
4
votes
11
replies
4.1k
views
edgeR cpm filter
edger independent filtering multiple factor design cpm
updated 6.1 years ago by 48k • written 6.1 years ago by • 0
8
votes
3
replies
1.6k
views
Why edgeR::aveLogCPM() is simlar to log2(rowMeans(cpm)) instead of rowMeans(cpm(y, log=TRUE))
edgeR rnaseq limma independent filtering
6.2 years ago Robert Castelo ★ 3.0k
3
votes
3
replies
1.4k
views
csaw: how does unequal sample size affect filtering filterWindows step
csaw differential binding analysis sample size independent filtering statistical power
updated 6.2 years ago by ★ 28k • written 6.2 years ago by • 0
0
votes
3
replies
3.3k
views
DESeq2 independent filtering not working
deseq2 independent filtering cookscutoff
6.6 years ago tamsyn.derrick • 0
2
votes
3
replies
8.9k
views
Remove genes with very low counts for all samples or let DESeq2 perform independent filtering?
deseq2 independent filtering lowcountgenes
updated 7.7 years ago by 41k • written 7.7 years ago by ▴ 30
5
votes
4
replies
7.1k
views
edgeR cpm filter with >1 factor
edger cpm multiple factor design independent filtering
7.9 years ago dietahanson ▴ 30
9
votes
6
replies
1.7k
views
Independent filtering with unequal group sizes?
independent filtering edger deseq2
updated 8.3 years ago by ★ 28k • written 8.3 years ago by 7.8k
3
votes
13
replies
2.1k
views
Design and independent filtering of patient RNA-seq data
differential gene expression deseq2 design independent filtering limma
updated 8.5 years ago by 64k • written 8.5 years ago by ▴ 90
18
votes
12
replies
3.4k
views
Low-count filtering with uneven sequencing depth between samples?
edgeR deseq2 rna-seq independent filtering
updated 8.5 years ago by 41k • written 8.5 years ago by 7.8k
6
votes
4
replies
2.5k
views
discrepance in DESeq2 results with different design structures
deseq2 differential expression independent filtering pre-filtering design matrix
8.6 years ago Assa Yeroslaviz ★ 1.5k
1
vote
4
replies
1.8k
views
Selection of appropriate gene filtering method for discovering statistically significant genes for Affymetrix arrays
bioconductor differential gene expression independent filtering
8.9 years ago svlachavas ▴ 820
2
votes
3
replies
16k
views
Removing genes with very low counts in all samples before run DESeq
deseq2 statistical power independent filtering
9.0 years ago alejandro.colaneri ▴ 20
0
votes
1
reply
2.6k
views
DESeq2 independent filtering using filter=rv
deseq2 INDEPENDENT FILTERING
updated 9.2 years ago by 41k • written 9.2 years ago by • 0
17 results • Page 1 of 1
Recent ...
Replies
Comment: Why is DMRcate not available for Bioconductor version 3.18? by Daniel E. Weeks ▴ 20
Thank you for the explanation and contacting the DSS package authors.
Comment: Why is DMRcate not available for Bioconductor version 3.18? by shepherl 3.6k
The DSS package authors just need to add `edgeR` to their Suggest of their DESCRIPTION. They have been contacted about it but have not acte…
Answer: GOslim missing GO term by James W. MacDonald 64k
I think it's because that GO term isn't an offspring of any term in the GO slim you are downloading. ``` > ids<- "GO:0002831" > slim <…
Answer: Obtaining rsIDs with ENSG and variant ID information by Robert Castelo ★ 3.0k
You should first and foremost find out what was the human reference genome version from which your dataset was derived. Assuming this was G…
Comment: DESeq2 - groups with biological replicates from the same patient by James W. MacDonald 64k
If by clustering you mean there might be a within-subject correlation, then yes it's a possibility. But you cannot control for that using a…
Votes
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Comment: limma::voom vs edgeR::voomLmFit - when to use?
Answer: limma::voom vs edgeR::voomLmFit - when to use?
Awards • All
Scholar to James W. MacDonald 64k
Scholar to Assa Yeroslaviz ★ 1.5k
Popular Question to Gordon Smyth 48k
Popular Question to Endre Sebestyén ▴ 70
Popular Question to ramonfallon ▴ 20
Locations • All
United States, 3 minutes ago
Pittsburgh, Pennsylvania, United States of America, 4 minutes ago
United States, 4 minutes ago
United States, 8 minutes ago
France, 12 minutes ago
Traffic: 492 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6