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copy number
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0
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746
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cn.MOPS output - mean/median of what?
cn.MOPS
CNV
copy number
4.2 years ago
liorglic
▴ 10
0
votes
1
reply
1.6k
views
how to analyze CNV data
copy number
6.8 years ago
mms140130
• 0
0
votes
0
replies
757
views
How to combine CGHcall objects
cghcall
r
cgh
copy number
7.0 years ago
kitcurtius
• 0
1
vote
1
reply
1.2k
views
Batch Correction and Normalization for champ.CNA
bioconductor
ChAMP
copy number
batch effect
normalization
updated 7.2 years ago by
rasmus.rydbirk
▴ 10 • written 7.2 years ago by
apmishra
• 0
0
votes
0
replies
994
views
champ.CNA error (Error in sort(abs(diff(genomdat)))[1:n.keep])
ChAMP
champ
copy number
7.3 years ago
apmishra
• 0
2
votes
9
replies
2.5k
views
Calling amplifications and deletions from CopywriteR output
CopywriteR
copy number
updated 8.2 years ago by
t.kuilman
▴ 170 • written 8.2 years ago by
smcnulty
• 0
0
votes
0
replies
944
views
Why are the raw copy numbers maxed at 5 and minned at 0 ?
crlmm
copy number
9.1 years ago
kforner
• 0
7 results • Page
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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…
Answer: More regions in union when increasing DBA$config$mergeOverlap
by
Rory Stark
★ 5.2k
I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
HAK
• 0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
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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