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subset
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928
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How to subset a list of genes from a curated reference list of genes
R
subset
DifferentialExpression
updated 19 months ago by
Basti
▴ 780 • written 19 months ago by
Manav
• 0
3
votes
2
replies
1.3k
views
Import or Subset VCF PASS Variants
VariantAnnotation
subset
ScanVcfParam
updated 4.0 years ago by
Martin Morgan
25k • written 4.0 years ago by
Dario Strbenac
★ 1.5k
2
votes
5
replies
2.0k
views
How to construct a subset of TxDb object from TxDb.Hsapiens.UCSC.hg38.knownGene and selected genes
TxDb.Hsapiens.UCSC.hg38.knownGene
subset
TxDb object
5.0 years ago
Ruichao.Zeng
▴ 20
1
vote
2
replies
1.0k
views
Newbie question: how do I address a subset obtained by split()?
flowStats
newbie
split
subset
flowCore
5.7 years ago
yulia.chupalova
• 0
2
votes
1
reply
2.0k
views
Error in DESeq2 plotMA from object subset
deseq2
maplot
subset
updated 6.3 years ago by
Michael Love
41k • written 6.3 years ago by
rbronste
▴ 60
0
votes
3
replies
2.6k
views
filtering out probes with no gene symbol from expressionSet
probe
filter
subset
gene symbol
affy
9.2 years ago
alakatos
▴ 130
6 results • Page
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Replies
Comment: Too many significant genes when integrating gtex and tcga
by
ATpoint
★ 4.1k
These two datasets are from completely different experiments / batches. It is utterly meaningless to compare them. I would suggest comparat…
Answer: fgsea significant result
by
ATpoint
★ 4.1k
Set a fixed seed before running this. Note that a FDR of 0.25 in fgsea is wildly and overly lenient. See https://support.bioconductor.o…
Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …
Answer: Once again a "Model matrix not full rank"
by
swbarnes2
★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
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