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copywriteR
•
reset
3
votes
3
replies
5.0k
views
Preparing CopywriteR output for GISTIC 2.0 analysis
copywriter
updated 10.0 years ago by
t.kuilman
▴ 170 • written 10.0 years ago by
jcarter
• 0
3
votes
12
replies
3.1k
views
S4Vectors and subectHits error
s4vectors
copywriter
updated 7.8 years ago by
Michael Lawrence
★ 11k • written 7.8 years ago by
TriS
▴ 200
2
votes
9
replies
3.6k
views
Calling amplifications and deletions from CopywriteR output
CopywriteR
copy number
updated 10.0 years ago by
t.kuilman
▴ 170 • written 10.0 years ago by
smcnulty
• 0
2
votes
4
replies
3.2k
views
Visualizing CopywriteR's segmentation output in IGV
copywriter
dnacopy
updated 10.0 years ago by
t.kuilman
▴ 170 • written 10.0 years ago by
jcarter
• 0
2
votes
4
replies
1.5k
views
CopywriteR job runs out of memory
copywriter
cnv
updated 5.8 years ago by
oscarkrijgsman
▴ 20 • written 5.8 years ago by
Ram
▴ 220
2
votes
1
reply
1.7k
views
Copyhelper: Preprocession of mappability
CopywriteR
updated 10.1 years ago by
t.kuilman
▴ 170 • written 10.1 years ago by
Felix
• 0
1
vote
3
replies
1.9k
views
CopywriteR can't finish calculating copy number
copywriter
bam
updated 9.7 years ago by
t.kuilman
▴ 170 • written 9.7 years ago by
thestaroceanster
• 0
1
vote
2
replies
2.3k
views
BiocParallel and CopywriteR Error
bioconductor
biocparallel
copywriter
updated 8.6 years ago by
Martin Morgan
25k • written 8.6 years ago by
genomic8328
▴ 10
1
vote
2
replies
1.8k
views
Copywriter output looks strange
copywriter
10.0 years ago
MatthewGField
▴ 10
0
votes
2
replies
886
views
Error in if (nrow(peaks) > 0) { : argument is of length zero Calls: CopywriteR ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous> Execution h…
CopywriteR
CopyhelpeR
22 months ago
fer_talavera
• 0
0
votes
7
replies
2.8k
views
Multithreading CopywriteR on SLURM cluster
copywriter
slurm
openMPI
updated 10.0 years ago by
t.kuilman
▴ 170 • written 10.0 years ago by
smcnulty
• 0
0
votes
1
reply
1.9k
views
CopywriteR - choosing optimal bin size for targeted sequencing panel
copywriter
bin size
targeted sequencing
updated 10.0 years ago by
t.kuilman
▴ 170 • written 10.0 years ago by
sshung
• 0
0
votes
3
replies
1.9k
views
CopywriteR error: "Error in .Method"
CopywriteR
9.6 years ago
Tom
▴ 10
0
votes
1
reply
2.3k
views
CopywriteR: CNV calling on normals samples / gaps in chromosomes
copynumber
cnvtools
cnv
copywriteR
updated 9.6 years ago by
t.kuilman
▴ 170 • written 9.6 years ago by
ahinsahr11
• 0
0
votes
1
reply
1.5k
views
Problems with CopywriteR
copywriter
updated 8.9 years ago by
t.kuilman
▴ 170 • written 8.9 years ago by
filipzembol
• 0
0
votes
1
reply
1.4k
views
CopywriteR - low coverage-regions display very low numbers
copywriter
copynumber
updated 7.4 years ago by
t.kuilman
▴ 170 • written 7.4 years ago by
magdaaverte
• 0
0
votes
1
reply
1.0k
views
CopywriteR output
CopywriteR
updated 22 months ago by
fer_talavera
• 0 • written 4.3 years ago by
Joshua
• 0
17 results • Page
1 of 1
Recent ...
Replies
Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?
by
Gordon Smyth
53k
I tend to use dpcCN(), because it more robust than dpc() to experiments with lots of samples and big differences between samples. You coul…
Answer: Which preprocessing steps are needed before running limpa?
by
Gordon Smyth
53k
Please see the example limpa analyses given at <http://github.com/smythlab/limpa>, especially the kidney cancer case study. limpa does not…
Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name
by
Korneel
• 0
Thanks for the quick reply! If I understand correctly, I think if I keep track of the full lineage, I shouldn't have any risk of collapsin…
Comment: Pathway abundance data from Curatedmetagenomics
by
yesquokkan
• 0
Hello, I was also wondering about the same issue. Did you figure it out?
Comment: [DESeq2] Changing dispersion estimates between runs of DESeq2
by
colinmccornack
• 0
FWIW: This seems to be due to architectural differences between two compute nodes I was running on, specifically with the DESeq2:::fitNbino…
Votes
Answer: Subsetting data verses contrasts [DESeq2]?
A: WGCNA differences two groups 10 replicates each group
A: WGCNA sample size minimum: why?
Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name
Answer: Can you colour dendrogram branch clusters in pheatmap?
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