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WES
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Applying exomeCopy to call CNVs withouts controls considering batch effects
exomeCopy
CNV
WES
3.2 years ago
Cheng
• 0
17
votes
8
replies
3.3k
views
How to check the read length for all the TCGA data samples in GDC?
gdc
tcga
wes
gdc data
updated 6.2 years ago by
Sean Davis
21k • written 6.2 years ago by
Biologist
▴ 110
2
votes
2
replies
1.4k
views
detecting of CNV in WGS/WES data
CNV
WGS
WES
updated 7.0 years ago by
Haiying.Kong
▴ 110 • written 7.0 years ago by
Bogdan
▴ 670
0
votes
0
replies
863
views
Software for checking sample swap for matched WES
WES
7.7 years ago
Haiying.Kong
▴ 110
0
votes
0
replies
1.2k
views
any ideas on a workflow for exome seq data analysis with R?
exome
dnaseq
WES
8.1 years ago
arvand.akbari
• 0
5 results • Page
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Comment: Trouble Installing DADA2 (warning: R new user)
by
shepherl
3.9k
As far as this ERROR for Bioc requires R version, Bioconductor is closely tied to an R release. Depending if you tried to use a premade s…
Answer: LRT test for different timepoints (one tissue types vs. many tissue types)
by
Michael Love
42k
No, this is a contrast of estimated coefficient (e.g. the Wald test).
Comment: Ranking the GSEA Results
by
Michael Love
42k
Got it. So then I'll take off DESeq2 as its mostly a downstream question. You may need to direct the fgsea developer to the thread. When yo…
Comment: Ranking the GSEA Results
by
V_Vibes
• 0
I have actually used the "fgsea" Bioconductor package which is used for GSEA. Thanks for pointing that out. I have edited that in the origi…
Comment: Ranking the GSEA Results
by
V_Vibes
• 0
The idea was inspired by people ranking the DEGs for preranked GSEA using their log2FC * (-log10 p-value). Also, the GSEA results I am gett…
Votes
Error in `$<-.data.frame`(`*tmp*`, "dispersion", value = NA)
ChiPseeker package: plotAnnoPie identical colors for peakAnnoList features
Comment: How to get the DMR?
Answer: Using both voom and removeBatchEffect, will they double adjust the data or is it
Answer: Using both voom and removeBatchEffect, will they double adjust the data or is it
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