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roadmap project
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2
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6
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1.8k
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R getting "stuck" with RoadMap resource retrieval through AnnotationHub
roadmap project
annotationhub
8.0 years ago
vanesa_1230
• 0
8
votes
4
replies
5.0k
views
Tutorial:
Epigenomics RoadMap Project files now accessible via AnnotationHub
AnnotationHub
Epigenomics
BigData
RoadMap Project
NIH
Tutorial
updated 8.0 years ago by
vanesa_1230
• 0 • written 9.9 years ago by
Sonali Arora
▴ 390
3
votes
2
replies
1.9k
views
AnnotationHub: A RPKM data.frame of Epigenomics RoadMap Project seems strange
annotationhub
roadmap project
rpkm
data.frame
8.6 years ago • updated 8.5 years ago
wcstcyx
▴ 30
3
votes
1
reply
1.6k
views
AnnotationHub: confusing pValue/qValue for (some) Roadmap records
roadmap project
annotationhub
epigenomics
big data
updated 9.0 years ago by
Valerie Obenchain
★ 6.8k • written 9.0 years ago by
kevin.rue
▴ 350
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Comment: Bioconductor 3.20 Release Schedule
by
randyprice13102000
• 0
This offers much info https://bioconductor.org/checkResults/release/bioc-LATEST/
Comment: Filtering after DESeq
by
ATpoint
★ 4.8k
The problem is that your prefilter is not group-aware so the behaviour of seeing these sorts of outliers is expected. This is why I always …
Comment: GSEA preranked analysis downstream of DEseq2
by
ATpoint
★ 4.8k
All due respect, this is what people do since pvalues exist, so this paper is not a reference, not is this a special score that merits a na…
Comment: Check removeBatchEffect effectiveness
by
ATpoint
★ 4.8k
> insert size, mean GC, etc... This is not a classical "batch" in the common sense, at least I've never seen this to be corrected for expl…
Answer: Check removeBatchEffect effectiveness
by
Gordon Smyth
52k
Your call to removeBatchEffect() is not correct because that function does not have an argument called `batch3`, meaning that the batch fac…
Votes
Answer: DiffBind; Error: No sites have activity greater than filter value
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
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