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GTEx
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Can i perform DEseq2 from 2 different rse objects download from RECOUNT database
DESeq2
recount
GTEx
TCGA
recount3
updated 11 months ago by
ATpoint
★ 4.0k • written 11 months ago by
David
▴ 20
2
votes
2
replies
1.9k
views
Create TPM gene tables/dataframe from ReCount3
recount3
TCGA
GTEx
DESeq2
22 months ago
David
▴ 20
2
votes
2
replies
1.2k
views
Gene Selection GTex for DESeq2 Analysis
DESeq2
GTEx
3.2 years ago
Bine
▴ 40
0
votes
1
reply
3.3k
views
Is GTEx age and sex data available via the recount package?
recount
gtex
updated 5.5 years ago by
Leonardo Collado Torres
★ 1.0k • written 5.5 years ago by
abe
• 0
2
votes
2
replies
1.1k
views
Error in ebayes in limma when analyzing GTEx data
limma
voom
gtex
6.0 years ago
mico
• 0
1
vote
2
replies
1.8k
views
DESeq2 for differential gene expression on GTEx dataset
rnaseq
deseq2
gtex
updated 6.4 years ago by
Michael Love
41k • written 6.4 years ago by
vikram
• 0
2
votes
0
replies
3.8k
views
Tutorial:
BoF Bioc2017: Analyzing publicly available cancer genomics data from GTEx and TCGA with Bioconductor
public data
TCGA
GTEx
Tutorial
6.7 years ago
shepherl
3.8k
7 results • Page
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Comment: DESeq filtering specific to contrasts
by
Michael Love
41k
It will likely not filter it out, but really the per-dataset details would affect the results.
Comment: DESeq filtering specific to contrasts
by
Carlin95
• 0
Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…
Comment: FilterByExpr low counts with small sample size
by
Jonathan
▴ 10
Thank you for your answer; However, I have some follow-up questions. Following up in In your [1-2-3 article][1], you say that > "... the…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Seyram M.
• 0
Thank you very much for your reply! I will do so. Kind regards, Seyram
Comment: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
by
isaac.vock
• 0
Thank you for your response. I can confirm that setting `-t exon` and/or removing `-s 1` and adding `-O` has no impact on the number of suc…
Votes
Install/Switch between multiple versions of R, Rstudio, and Bioconductor
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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