Showing : 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 ★ 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 7.3 years ago by ▴ 540 • written 7.3 years ago by ▴ 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 ▴ 540 • written 7.7 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 7.0 years ago by ▴ 540 • written 7.2 years ago by ▴ 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 • 0 • written 7.2 years ago by ▴ 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 • 0 • written 6.3 years ago by ▴ 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 ▴ 540 • written 5.8 years ago by • 0
2
votes
6
replies
1.8k
views
refSeqName issue in cn.MOPS
CNV cn.mops
updated 8.3 years ago by ▴ 540 • written 8.3 years ago by • 0
2
votes
3
replies
1.2k
views
mosdepth output into cn.mops?
cn.mops
updated 5.1 years ago by ▴ 540 • written 5.1 years ago by • 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 25k • written 8.8 years ago by • 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 ▴ 540 • written 6.9 years ago by ▴ 110
2
votes
5
replies
1.4k
views
Error in referencecn.mops() for paired exome sequencing (normal/tumor)
cn.mops
updated 8.2 years ago by ▴ 540 • written 8.3 years ago by ▴ 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 ▴ 540 • written 8.8 years ago by • 0
1
vote
2
replies
706
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 ▴ 540 • written 7.6 years ago by • 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 ▴ 540 • written 10.9 years ago by ▴ 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 ▴ 540 • written 7.5 years ago by ▴ 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 ▴ 540 • written 8.8 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
1
vote
4
replies
1.6k
views
Detect CNVs in target sample
CNV cn.mops
updated 8.3 years ago by ▴ 540 • written 8.3 years ago by • 0
1
vote
1
reply
970
views
which cn.mops function should I use
cn.mops
updated 7.0 years ago by ▴ 540 • written 7.0 years ago by • 0
1
vote
4
replies
940
views
cn.mops on CRAM files
cn.mops
updated 4.9 years ago by ▴ 540 • written 4.9 years ago by • 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 ▴ 540 • written 6.8 years ago by • 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 • 0 • written 6.1 years ago by • 0
0
votes
1
reply
877
views
cn.mops: interpreting output when returnPosterior=TRUE
cn.mops
updated 6.0 years ago by ▴ 540 • written 6.0 years ago by • 0
0
votes
18
replies
4.5k
views
cn.MOPs: Error in value[[3L]](cond) :
cn.mops
updated 5.8 years ago by ▴ 540 • written 5.8 years ago by • 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
946
views
Mean and median values in cn.mops cnvs output
cn.mops referencecn.mops
updated 5.3 years ago by 0 • written 5.4 years ago by • 0
0
votes
3
replies
945
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
968
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
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 11.4 years ago by ▴ 50
0
votes
1
reply
855
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
0
votes
0
replies
620
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
725
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
469
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 • 0 • written 21 months ago by ▴ 40
0
votes
2
replies
1.1k
views
problem about using cn.mops
cn.mops
updated 2.9 years ago by • 0 • written 4.8 years ago by • 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 ▴ 540 • written 11.0 years ago by ▴ 750
50 results • Page 1 of 1
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Comment: Method to find pathways different between 2 groups by Gordon Smyth 50k
sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k
I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
Answer: Extremely small p-values using Limma for proteomic data by James W. MacDonald 65k
If you fit a cell means model (without an intercept), you will have to construct contrasts using `makeContrasts` and fit them using `contra…
Comment: Memory errors using read.bismark? by Juan Higareda • 0
Thanks a lot Peter, We solved the problem, IT had implemented a policy of RAM usage that started a conflict with any RAM-hungry process, m…
Answer: meffil.snp.concordance by James W. MacDonald 65k
This support site is meant to help people with technical questions about Bioconductor packages. The `meffil` package is not Bioconductor, n…
Votes
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
Answer: Extremely small p-values using Limma for proteomic data
Answer: How to save the DEXSeq results
Answer: minfi support of illumina Infinium methylationEPIC v2.0
Comment: minfi support of illumina Infinium methylationEPIC v2.0
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Popular Question to Gordon Smyth 50k
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Scholar to Michael Love 42k
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