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copy number
•
reset
0
votes
0
replies
318
views
cn.MOPS output - mean/median of what?
cn.MOPS
CNV
copy number
2.5 years ago
liorglic
▴ 10
0
votes
1
reply
1.2k
views
how to analyze CNV data
copy number
5.1 years ago
mms140130
• 0
0
votes
0
replies
493
views
How to combine CGHcall objects
cghcall
r
cgh
copy number
5.2 years ago
kitcurtius
• 0
1
vote
1
reply
856
views
Batch Correction and Normalization for champ.CNA
bioconductor
ChAMP
copy number
batch effect
normalization
updated 5.4 years ago by
rasmus.rydbirk
▴ 10 • written 5.4 years ago by
apmishra
• 0
0
votes
0
replies
678
views
champ.CNA error (Error in sort(abs(diff(genomdat)))[1:n.keep])
ChAMP
champ
copy number
5.5 years ago
apmishra
• 0
2
votes
9
replies
1.7k
views
Calling amplifications and deletions from CopywriteR output
CopywriteR
copy number
updated 6.5 years ago by
t.kuilman
170 • written 6.5 years ago by
smcnulty
• 0
0
votes
0
replies
678
views
Why are the raw copy numbers maxed at 5 and minned at 0 ?
crlmm
copy number
7.4 years ago
kforner
• 0
7 results • Page
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Comment: unable to install.packages("spatialLIBD")
by
Leonardo Collado Torres
▴ 1000
All the solutions Lori proposed are valid. The `STexampleData` package I think has only 1 of our samples (see https://bioconductor.org/pack…
Answer: how to use Rsamtools to parse extra fields from STAR alignment
by
Martin Morgan
25k
The 'extra columns' are called 'tags' in the SAM specification. Following the documentation `?ScanBamParam` you should add `tag = "NH"`. Se…
Comment: DEXSeq: Error in reading counts from htseq "Error in FUN(X[[i]], ...) : subscrip
by
Delta._.43
▴ 10
Yes, indeed it is the same error. Here are the first few lines of my count file. ``` "ENSG00000000003":"001" 0 "ENSG00000000003":"002" 1032…
Comment: DEXSeq: Error in reading counts from htseq "Error in FUN(X[[i]], ...) : subscrip
by
Alejandro Reyes
★ 1.8k
Thanks for your detail post. I think this might be related to this issue here: https://support.bioconductor.org/p/9143537/ Just to verify…
Answer: spot- vs cell-level data access
by
Leonardo Collado Torres
▴ 1000
Hi, The `SingleCellExperiment` object you can download with `fetch_data(type = "sce")` pre-dates the creation of `SpatialExperiment`. No…
Votes
Answer: spot- vs cell-level data access
Answer: unable to install.packages("spatialLIBD")
Comment: unable to install.packages("spatialLIBD")
error running UniProt.ws
Answer: DEXSeq errors "Error in scan( line ... did not have 3 elements" and "Error in FU
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