Showing : cn.mops • reset
0
votes
18
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4.5k
views
cn.MOPs: Error in value[[3L]](cond) :
cn.mops
updated 5.9 years ago by ▴ 540 • written 5.9 years ago by • 0
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
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 ★ 11k • written 6.9 years ago by ▴ 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 7.4 years ago by ▴ 540 • written 7.4 years ago by ▴ 20
2
votes
8
replies
2.4k
views
Copy Number Variation in the cn.mops Package
cn.mops cnv cnvtools
updated 8.9 years ago by 25k • written 8.9 years ago by • 0
1
vote
7
replies
2.3k
views
Extracting CNV data from CNVDetectionResult
cn.mops
updated 8.4 years ago by ▴ 540 • written 8.8 years ago by • 0
5
votes
7
replies
1.5k
views
about the runs with cn.mops
cn.mops referencecn.mops
6.7 years ago 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 10 weeks ago by • 0 • written 6.3 years ago by ▴ 10
2
votes
6
replies
1.8k
views
refSeqName issue in cn.MOPS
CNV cn.mops
updated 8.4 years ago by ▴ 540 • written 8.4 years ago by • 0
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 ▴ 540 • written 8.3 years ago by ▴ 10
3
votes
5
replies
1.6k
views
R code for cn.mops
cn.mops
updated 14 months ago by • 0 • written 7.3 years ago by ▴ 670
0
votes
5
replies
1.5k
views
Error when use getSegmentReadCountsFromBAM
targeted sequencing cn.mops
6.3 years ago jinxinhao1988 • 0
0
votes
5
replies
1.4k
views
Complete chromosome losses and polyploidies
cn.mops polyploidy
8.5 years ago mikko.arvas • 0
0
votes
5
replies
1.4k
views
p or fdr values
cn.mops
8.8 years ago billnjcn • 0
0
votes
4
replies
1.9k
views
Using cn.MOPs to estimate CNVs in tumors without reference normal
cn.mops cnvtools tcga cnv
updated 8.5 years ago by ▴ 540 • written 8.5 years ago by ▴ 20
0
votes
4
replies
1.4k
views
Call CNV in population with large depth variance
cn.mops
updated 7.4 years ago by ▴ 540 • written 7.4 years ago by • 0
0
votes
4
replies
1.3k
views
cn.mops encounter negative width problem
cn.mops referencecn.mops
updated 7.1 years ago by ▴ 540 • written 7.1 years ago by • 0
0
votes
4
replies
1.3k
views
Is cn.mops can be used for detecting CNV for targeted sequencing of 8M region
cn.mops
updated 6.4 years ago by ▴ 540 • written 6.4 years ago by • 0
1
vote
4
replies
1.6k
views
Detect CNVs in target sample
CNV cn.mops
updated 8.4 years ago by ▴ 540 • written 8.4 years ago by • 0
1
vote
4
replies
944
views
cn.mops on CRAM files
cn.mops
updated 5.0 years ago by ▴ 540 • written 5.0 years ago by • 0
0
votes
4
replies
1.4k
views
No CNVs detected. Try changing "normalization", "priorImpact" or "thresholds".
No CNVs detected. Try changing "normalization" "priorImpact" or "thresholds". cn.mops
updated 7.7 years ago by ▴ 540 • written 7.7 years ago by • 0
0
votes
3
replies
1.8k
views
cn.mops CNV calling for multiple samples
cn.mops
updated 8.4 years ago by ▴ 540 • written 8.4 years ago by • 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 ▴ 540 • written 8.8 years ago by ▴ 590
2
votes
3
replies
1.3k
views
mosdepth output into cn.mops?
cn.mops
updated 5.1 years ago by ▴ 540 • written 5.1 years ago by • 0
4
votes
3
replies
1.3k
views
parameter "refSeqName" in function "getReadCountsFromBAM"
cn.mops
updated 7.3 years ago by ▴ 540 • written 7.7 years ago by • 0
0
votes
3
replies
1.2k
views
cn.mops segmentation error
cn.mops
updated 21 months ago by • 0 • written 22 months ago by ▴ 40
2
votes
3
replies
1.5k
views
Doubt about WL in cn.mops
dnacopy dnaseq genomic cn.mops cnv
updated 5.9 years ago by ▴ 540 • written 5.9 years ago by • 0
0
votes
3
replies
975
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 25k • written 4.9 years ago by • 0
0
votes
3
replies
953
views
tumor vs control: multiple samples
cn.mops
5.4 years ago DannyM • 0
1
vote
2
replies
717
views
" 'end' must be >= 'start' - 1" error in cn.mops
cn.mops
20 months ago User000 • 0
0
votes
2
replies
1.8k
views
cn.mops: copy number for low-coverage bam files?
Sequencing Coverage cn.mops Sequencing Coverage cn.mops
updated 11.1 years ago by ▴ 540 • written 11.1 years ago by ▴ 750
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 ▴ 540 • written 8.8 years ago by • 0
2
votes
2
replies
1.2k
views
Save plot as png in cn.MOPS
cn.mops
8.4 years ago ashkot09 • 0
0
votes
2
replies
909
views
why there are multiple calls to cnmops C function?
cn.mops
updated 7.8 years ago by ▴ 540 • written 7.8 years ago by • 0
0
votes
2
replies
1.1k
views
about cn.MOPS: paired vs unpaired
cn.mops
updated 7.5 years ago by ▴ 540 • written 7.5 years ago by ▴ 670
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 ▴ 540 • written 7.5 years ago by ▴ 90
0
votes
2
replies
1.4k
views
about an error in cn.MOPS : could not find symbol "recursive" in environment of the generic function
cn.MOPS
7.3 years ago Bogdan ▴ 670
0
votes
2
replies
1.3k
views
Conflict in cnvr and cnvs result from cn.mops
cn.mops
updated 7.0 years ago by ▴ 540 • written 7.0 years ago by • 0
0
votes
2
replies
1.1k
views
getReadCountsFromBAM and paired-end reads
cn.mops
6.9 years ago Alexandre Kuhn ▴ 20
4
votes
2
replies
1.4k
views
using cn.MOPS on WES data GERMLINE-TUMOR
cn.mops
6.9 years ago Bogdan ▴ 670
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 ▴ 540 • written 6.8 years ago by • 0
0
votes
2
replies
1.5k
views
cn.MOPs issue with "Error in if (all(segMedianT == 0))"
cn.mops cnv
updated 6.4 years ago by ▴ 540 • written 6.4 years ago by ▴ 20
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
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 • 0 • written 6.2 years ago by • 0
0
votes
2
replies
1.1k
views
problem about using cn.mops
cn.mops
updated 3.0 years ago by • 0 • written 4.9 years ago by • 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 7.1 years ago by ▴ 540 • written 7.3 years ago by ▴ 670
0
votes
1
reply
854
views
Input (X) data type is not numeric if read from GRanges obj
cn.mops
updated 7.4 years ago by ▴ 540 • written 7.4 years ago by • 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 ▴ 540 • written 11.5 years ago by ▴ 50
0
votes
1
reply
864
views
Error using singlecn.mops for cnv detection in WGS data
cnv cn.mops singlecn.mops
updated 2.2 years ago by • 0 • written 4.5 years ago by • 0
1
vote
1
reply
977
views
which cn.mops function should I use
cn.mops
updated 7.1 years ago by ▴ 540 • written 7.1 years ago by • 0
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Comment: all variables in design formula must be columns in colData (Deseq2) error by Galina • 0
thank you!
Comment: all variables in design formula must be columns in colData (Deseq2) error by ATpoint ★ 4.1k
coldata_rat <- data.frame(conditions=..., batch=...)
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by robersy • 0
Thank you all for your comments. I will follow your suggestions.
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by Ken C • 0
Hi Michael, thanks a lot for your prompt reply! Not sure if this is appropriate or if you are the right person to ask -- is there anything…
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by Ken C • 0
Well, if I look at genes with baseMean>50, then the relative absolute difference in log2FoldChange (say over the absolute log2FoldChange of…
Votes
biomaRt not working - lazy table error
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: 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
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