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ChIPSeqData
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DiffBind bUseSummarizeOverlaps error - the rownames and colnames of the supplied assay(s) must be NULL or identical to those of the SummarizedExper…
DiffBind
ChIPSeqData
updated 22 months ago by
millerh1
▴ 10 • written 2.4 years ago by
sfpacman
• 0
0
votes
1
reply
1.9k
views
bwa mem2 index genome - chipseq analysis
Genome
bwamem
ChIPSeqData
index
updated 14 months ago by
ATpoint
★ 4.1k • written 14 months ago by
Maka
• 0
5
votes
3
replies
1.3k
views
importing BED with non-integer values
ChIPseeker
ChIPSeqData
updated 3.5 years ago by
James W. MacDonald
65k • written 3.5 years ago by
Morris
▴ 10
0
votes
3
replies
994
views
CountOverlap
GeneExpression
ChIPSeqData
updated 19 months ago by
James W. MacDonald
65k • written 19 months ago by
michela
▴ 20
0
votes
2
replies
772
views
New to ChipSeq getting 0 peaks using dba()
ChipSeq
ChIPSeqData
chipseqDB
17 months ago
stacy.genovese
• 0
0
votes
0
replies
508
views
ChIPpeakAnno: No seqlevelsStyle compatible entry
ChIPSeqData
2.5 years ago
tom.dean
• 0
1
vote
1
reply
76
views
Fold change calculation in Diffbind vs. DESEQ2?
DiffBind
ChIPSeqData
DESeq2
updated 1 day ago by
Michael Love
41k • written 2 days ago by
marcusn
• 0
7 results • Page
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Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
> I am just re-processing due to being uncertain about how they used the edgeR analysis to reach gene level edgeR devs published something…
Comment: Differences in differential analysis methods for RNA-Seq
by
james.zhang20
• 0
Thanks for the explanations, it has helped clarify some things. Unfortunately, I am working from an early access public dataset (https://do…
Answer: Deseq2 and Normalization of RNA sequencing data
by
ATpoint
★ 4.1k
There is no expectation of normality that is realistic in terms of expression level. Levels are widely different between genes, and counts …
Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…
Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
• 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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