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msigdb
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4
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3
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Problem converting msigdb Human symbols to Zebrafish in gmt format
msigdb
gmt
GSEA
written 10 days ago by
Georg
• 0
1
vote
1
reply
447
views
How should I run ssGSEA Hallmark Enrichment Analysis?
ssgsea
GSVA
biotype
proteincoding
msigdb
updated 4 months ago by
Robert Castelo
★ 3.1k • written 4 months ago by
snijesh
▴ 20
1
vote
1
reply
1.1k
views
Cleaning GeneSets from GSEA
msigdb
GSEABase
GSVA
updated 2.0 years ago by
Robert Castelo
★ 3.1k • written 2.0 years ago by
forlani.luca
• 0
1
vote
1
reply
1.9k
views
Tutorial:
Update gene symbols in GeneSetCollection
gseabase
msigdb
genesetcollection
Tutorial
written 5.8 years ago by
t.kuilman
▴ 170
2
votes
2
replies
3.9k
views
Clusterprofiler - MSigDB gene set analysis - Updated
clusterprofiler
GSEA
MSIGDB
updated 6.0 years ago by
Guangchuang Yu
★ 1.2k • written 6.0 years ago by
thomasjenner333
• 0
1
vote
2
replies
1.4k
views
Update to MSigDB derivates for romer()?
limma
romer
msigdb
updated 8.6 years ago by
James W. MacDonald
65k • written 8.6 years ago by
Jon Manning
▴ 40
0
votes
0
replies
1.3k
views
hyperGTest for MSigDB categories
category
gostats
msigdb
hypergeometric test
8.7 years ago
petyuk
▴ 70
7 results • Page
1 of 1
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Comment: limma models out of memory issue on Slurm HPC
by
Jitendra
▴ 10
thanks Gordon, but our methylation epic array input file is quite big and we can't read it in R by just using laptop memory so we need to …
Comment: Doing comparison of RNA-seq data using EdgeR
by
Michael Love
41k
Just to clarify, when I originally posted the title and tags had listed "DESeq2" and then the post was changed after my answer was added. …
Comment: fgsea fork
by
shepherl
3.8k
Not quite sure what you mean by clone or fork the package on latest version of R. Bioconductor runs all builds on the latest version of R.…
Answer: Doing comparison of RNA-seq data using EdgeR
by
Gordon Smyth
50k
It's pretty easy to do a two-group comparison using edgeR, but you seem to be stuck at the initial stage of reading data into R. If you exp…
Answer: Differing results from plotMDS and PCAtools
by
Gordon Smyth
50k
The reason why the two plots are different is that the first plot is a PCA plot while the second is a biplot. Quite different plots. The P…
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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