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ChIPpeakAnno
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138
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Best method for annotating distal peaks
ChIPSeq
annotation
ChIPpeakAnno
10 weeks ago
nilanjanamani88
• 0
1
vote
5
replies
523
views
ChIPpeakAnno annotatePeakInBatch output
ChIPpeakAnno
5 months ago
ilaria.maurizio
• 0
0
votes
0
replies
269
views
Why there are two pfms in the result of oligoSummary function of ChIPpeakAnno package?
ChIPpeakAnno
ChIPSeq
MotifDiscovery
6 months ago
franciscrick41
• 0
3
votes
7
replies
829
views
Genes in open chromatin region
ChIPpeakAnno
DiffBind
written 7 months ago by
Chris
• 0
2
votes
14
replies
1.1k
views
ChIPpeakAnno: S.lycopersicum annotation missing
ChIPpeakAnno
ChIPSeq
updated 7 months ago by
James W. MacDonald
65k • written 7 months ago by
Jerina
▴ 10
0
votes
1
reply
466
views
genomeStyles error in ChIPpeakAnno
Chippeakanno
ChIPpeakAnno
updated 8 months ago by
James W. MacDonald
65k • written 9 months ago by
Tami
• 0
0
votes
2
replies
587
views
annotate peaks using a custom genome
ChIPSeq
annotate
ChIPpeakAnno
updated 11 months ago by
Kai Hu
▴ 70 • written 12 months ago by
C T
▴ 140
7 results • Page
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Comment: DESeq2 setting significant p-value
by
Michael Love
41k
It does not resort. Also the dataset and results will have the same row names from object creation throughout the analysis.
Comment: Input Question for deseq.r
by
ATpoint
★ 4.0k
It is unclear what "deseq.r" is. It is not part of DESeq2, and almost certainly no part of RSeqAn. Please add details, and keep in mind tha…
Answer: DESEQ2 output gives multiple groups when only 2 groups are present
by
ATpoint
★ 4.0k
In the first PCA plot there is almost certainly some hidden character like whitespaces in the column from colData that encodes this group. …
Answer: A ComBat-seq issue: the covariates are confounded
by
ATpoint
★ 4.0k
```r > table(batch, group) group batch egfr gfp her2 1 0 12 5 2 6 6 0 ``` All of her2 is batch2, all of egfr i…
Comment: DESeq2 setting significant p-value
by
Dev
• 0
after running DESeq2 does it sort the value on the basis of pvalue, or anything, or does it give the data back in the input format I have …
Votes
Using GRanges and IRanges to simply get all chromosome data
A: Using GRanges and IRanges to simply get all chromosome data
Comment: Reading huge bismark coverage files using bbseq::read.bismark
Answer: Reading huge bismark coverage files using bbseq::read.bismark
Answer: Reading huge bismark coverage files using bbseq::read.bismark
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