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cn.mops
•
reset
5
votes
7
replies
1.5k
views
about the runs with cn.mops
cn.mops
referencecn.mops
6.7 years ago
Bogdan
▴ 670
5
votes
9
replies
1.8k
views
reduce function after combining 2 GRanges objects from cn.mops output
GRanges
cn.mops
updated 6.9 years ago by
Michael Lawrence
★ 11k • written 6.9 years ago by
Haiying.Kong
▴ 110
4
votes
9
replies
2.4k
views
How to use cn.mops to detect CNVs from Targeted DNA Sequencing data?
cn.mops
cnv
targeted sequencing
updated 7.3 years ago by
Günter Klambauer
▴ 540 • written 7.3 years ago by
Bouzid.a
▴ 20
4
votes
2
replies
1.4k
views
using cn.MOPS on WES data GERMLINE-TUMOR
cn.mops
6.9 years ago
Bogdan
▴ 670
4
votes
3
replies
1.3k
views
parameter "refSeqName" in function "getReadCountsFromBAM"
cn.mops
updated 7.2 years ago by
Günter Klambauer
▴ 540 • written 7.7 years ago by
Mohammad Alkhamis
• 0
3
votes
1
reply
1.2k
views
R code for cn.mops -- if a chromosome does not have CNV ?
cn.mops
referencecn.mops
updated 7.0 years ago by
Günter Klambauer
▴ 540 • written 7.2 years ago by
Bogdan
▴ 670
3
votes
12
replies
2.4k
views
Error installing cn.mops and Rsamtools in R 3.1.3
rsamtools
cn.mops
installation
9.1 years ago
Spollen, William G.
▴ 30
3
votes
5
replies
1.5k
views
R code for cn.mops
cn.mops
updated 13 months ago by
yr542
• 0 • written 7.2 years ago by
Bogdan
▴ 670
2
votes
6
replies
2.6k
views
Cn.mops error: Error in if (sum(rds.counts) == 0) { : missing value where TRUE/FALSE needed
software error
cn.mops
updated 8 weeks ago by
ama304374
• 0 • written 6.3 years ago by
daijieqiong
▴ 10
2
votes
2
replies
1.2k
views
Save plot as png in cn.MOPS
cn.mops
8.3 years ago
ashkot09
• 0
2
votes
3
replies
1.5k
views
Doubt about WL in cn.mops
dnacopy
dnaseq
genomic
cn.mops
cnv
updated 5.8 years ago by
Günter Klambauer
▴ 540 • written 5.8 years ago by
Cased
• 0
2
votes
6
replies
1.8k
views
refSeqName issue in cn.MOPS
CNV
cn.mops
updated 8.3 years ago by
Günter Klambauer
▴ 540 • written 8.3 years ago by
ashkot09
• 0
2
votes
3
replies
1.2k
views
mosdepth output into cn.mops?
cn.mops
updated 5.1 years ago by
Günter Klambauer
▴ 540 • written 5.1 years ago by
Philipp Bayer
• 0
2
votes
8
replies
2.4k
views
Copy Number Variation in the cn.mops Package
cn.mops
cnv
cnvtools
updated 8.8 years ago by
Martin Morgan
25k • written 8.8 years ago by
bioconductor
• 0
2
votes
1
reply
1.0k
views
How to combine CNVDetectionResult objects in cn.mops package
cn.mops
updated 6.9 years ago by
Günter Klambauer
▴ 540 • written 6.9 years ago by
Haiying.Kong
▴ 110
2
votes
5
replies
1.4k
views
Error in referencecn.mops() for paired exome sequencing (normal/tumor)
cn.mops
updated 8.3 years ago by
Günter Klambauer
▴ 540 • written 8.3 years ago by
remy.c.nicolle
▴ 10
2
votes
2
replies
1.8k
views
Adjusting the defaults in the cn.MOPs Package
cn.mops
cnv
cnvtools
updated 8.8 years ago by
Günter Klambauer
▴ 540 • written 8.8 years ago by
voksdvoks
• 0
1
vote
2
replies
708
views
" 'end' must be >= 'start' - 1" error in cn.mops
cn.mops
19 months ago
User000
• 0
1
vote
1
reply
867
views
Suggestion: type of ExpLogFoldChange (sini)
cn.mops
updated 7.6 years ago by
Günter Klambauer
▴ 540 • written 7.6 years ago by
Mohammad Alkhamis
• 0
1
vote
1
reply
1.1k
views
copy number segment calling with cn.mop when just one sample?
cn.mops
cn.mops
updated 8.8 years ago by
Günter Klambauer
▴ 540 • written 10.9 years ago by
Paul Shannon
▴ 750
1
vote
2
replies
1.2k
views
cn.mops: NA in the output of referencecn.mops
cn.mops
referencecn.mops
updated 7.5 years ago by
Günter Klambauer
▴ 540 • written 7.5 years ago by
Radek
▴ 90
1
vote
2
replies
1.8k
views
cn.MOPS error: Error in if (WL >= sl[i]) { : missing value where TRUE/FALSE needed
cn.mops
6.2 years ago
hugo.magalhaes
▴ 10
1
vote
7
replies
2.3k
views
Extracting CNV data from CNVDetectionResult
cn.mops
updated 8.4 years ago by
Günter Klambauer
▴ 540 • written 8.8 years ago by
abdul.elkadri
• 0
1
vote
3
replies
1.7k
views
"Some normalization factors are zero" error on cn.mops
cn.mops
updated 8.8 years ago by
Günter Klambauer
▴ 540 • written 8.8 years ago by
Stephen Piccolo
▴ 590
1
vote
4
replies
1.6k
views
Detect CNVs in target sample
CNV
cn.mops
updated 8.3 years ago by
Günter Klambauer
▴ 540 • written 8.3 years ago by
ashkot09
• 0
1
vote
1
reply
972
views
which cn.mops function should I use
cn.mops
updated 7.0 years ago by
Günter Klambauer
▴ 540 • written 7.0 years ago by
thestaroceanster
• 0
1
vote
4
replies
940
views
cn.mops on CRAM files
cn.mops
updated 4.9 years ago by
Günter Klambauer
▴ 540 • written 4.9 years ago by
dsilencio
• 0
1
vote
2
replies
1.6k
views
cn.MOPS - reporting log normalized read counts as table
cn.mops
log
normalized counts
table
updated 6.8 years ago by
Günter Klambauer
▴ 540 • written 6.8 years ago by
falk.zakrzewski
• 0
0
votes
1
reply
1.0k
views
Inconsistent Warning: GRanges out of bounds
cn.mops
granges
trim
Genomicranges-method
6.2 years ago
znl207
• 0
0
votes
2
replies
1.0k
views
best way to normalize for differences in sample read depth: normalize genome vs cn.MOPs
cn.mops
normalization
updated 14 months ago by
yr542
• 0 • written 6.1 years ago by
znl207
• 0
0
votes
1
reply
877
views
cn.mops: interpreting output when returnPosterior=TRUE
cn.mops
updated 6.0 years ago by
Günter Klambauer
▴ 540 • written 6.0 years ago by
laurabuggiotti
• 0
0
votes
18
replies
4.5k
views
cn.MOPs: Error in value[[3L]](cond) :
cn.mops
updated 5.8 years ago by
Günter Klambauer
▴ 540 • written 5.8 years ago by
laurabuggiotti
• 0
0
votes
0
replies
670
views
How to interpret out of referencecn.mops
referencecn.mops
cn.mops
5.8 years ago
eddie.kaho.ho
• 0
0
votes
0
replies
963
views
Doubt about the interpretation of cn.mops tumor vs normal results
cn.mops
dnaseq
bioinformatics
5.7 years ago
Cased
• 0
0
votes
1
reply
967
views
cn.MOPS: Error in getReadCountsFromBAM
cn.mops
5.7 years ago
laurabuggiotti
• 0
0
votes
0
replies
947
views
Mean and median values in cn.mops cnvs output
cn.mops
referencecn.mops
updated 5.3 years ago by
Bioconductor Community
0 • written 5.4 years ago by
kaushalm
• 0
0
votes
3
replies
946
views
tumor vs control: multiple samples
cn.mops
5.4 years ago • updated 5.3 years ago
DannyM
• 0
0
votes
0
replies
660
views
cn.mops normalization of multiple samples
cn.mops
5.3 years ago
DannyM
• 0
0
votes
3
replies
970
views
Error in if (all(x <= minReadCount) & lambda <= minReadCount) { : missing value where TRUE/FALSE needed
cnmops
cn.mops
error
updated 4.9 years ago by
Martin Morgan
25k • written 4.9 years ago by
s1812756
• 0
0
votes
1
reply
1.3k
views
Detection copy number variations with cn.MOPS package
Coverage
cn.mops
Coverage
cn.mops
updated 11.4 years ago by
Günter Klambauer
▴ 540 • written 11.4 years ago by
lpascual
▴ 50
0
votes
1
reply
856
views
Error using singlecn.mops for cnv detection in WGS data
cnv
cn.mops
singlecn.mops
updated 2.2 years ago by
SicilianSilicon
• 0 • written 4.5 years ago by
frez111
• 0
0
votes
0
replies
621
views
ChrM causes "missing value where TRUE/FALSE needed" error
cn.mops
4.5 years ago
millerh1
▴ 10
0
votes
1
reply
769
views
CNV plot using cn.mops
cnv
R
plot visualization
cn.mops
software error
4.4 years ago
ari
• 0
0
votes
0
replies
749
views
cn.MOPS output - mean/median of what?
cn.MOPS
CNV
copy number
4.2 years ago
liorglic
▴ 10
0
votes
1
reply
727
views
How to use panelcn.mops to detect CNVs from whole genome data by getting count windows from BED file?
cn.mops
panelcn.mops
CNV detection
CNV
4.2 years ago
metzgerlukas
• 0
0
votes
0
replies
470
views
cn.mops : undef chromsome using data matrix as input
CNV
cn.mops
undef
4.2 years ago
ankita.narang86
• 0
0
votes
1
reply
561
views
Suspected bug on GetReadCountsFromBAM in cn.mops
cn.mops
3.8 years ago
asafpr
• 0
0
votes
3
replies
1.2k
views
cn.mops segmentation error
cn.mops
updated 20 months ago by
gpovysil
• 0 • written 21 months ago by
jacorvar
▴ 40
0
votes
2
replies
1.1k
views
problem about using cn.mops
cn.mops
updated 2.9 years ago by
R
• 0 • written 4.8 years ago by
hzaujsxu
• 0
0
votes
2
replies
1.7k
views
cn.mops: copy number for low-coverage bam files?
Sequencing
Coverage
cn.mops
Sequencing
Coverage
cn.mops
updated 11.0 years ago by
Günter Klambauer
▴ 540 • written 11.0 years ago by
Paul Shannon
▴ 750
50 results • Page
1 of 1
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Comment: deseq2 results
by
swbarnes2
★ 1.3k
Cross-posted https://www.biostars.org/p/9594331/#9594458
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
Mike Smith
★ 6.5k
The other answers here are all good and demonstrate the issue with floating point comparisons nicely. I'd like to add that your particular…
Comment: More regions in union when increasing DBA$config$mergeOverlap
by
Ian D.
▴ 70
Nudging my question. I could do with confirmation before proceeding with my current projects. Thank you.
Comment: Extremely small p-values using Limma for proteomic data
by
Robert Castelo
★ 3.3k
From the point of view of visualization, I find handy the fact that raw p-values give more resolution than adjusted ones, which allows one …
Comment: deseq2 results
by
ATpoint
★ 4.1k
> the results are not satisfactory to me Well, what is your question? The DESeq2 vignette covers how to do analysis, and some diagnostics…
Votes
A: Volcanoplot with limma - RAW P-values or Adj.P-Values
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: minfi latest update for EPIC V2 chip
A: Error in DESeqDataSet : some values in assay are not integers
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