Showing : cn.mops • reset
1
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897
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" 'end' must be >= 'start' - 1" error in cn.mops
cn.mops
2.1 years ago User000 • 0
0
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3
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1.5k
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cn.mops segmentation error
cn.mops
updated 2.2 years ago by • 0 • written 2.3 years ago by ▴ 40
0
votes
1
reply
662
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Suspected bug on GetReadCountsFromBAM in cn.mops
cn.mops
4.3 years ago asafpr • 0
0
votes
1
reply
834
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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
4.7 years ago metzgerlukas • 0
0
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0
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595
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cn.mops : undef chromsome using data matrix as input
CNV cn.mops undef
4.7 years ago ankita.narang86 • 0
0
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0
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863
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cn.MOPS output - mean/median of what?
cn.MOPS CNV copy number
4.7 years ago liorglic ▴ 10
0
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1
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913
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CNV plot using cn.mops
cnv R plot visualization cn.mops software error
4.9 years ago ari • 0
0
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0
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730
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ChrM causes "missing value where TRUE/FALSE needed" error
cn.mops
5.0 years ago millerh1 ▴ 10
0
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1
reply
993
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Error using singlecn.mops for cnv detection in WGS data
cnv cn.mops singlecn.mops
updated 2.7 years ago by • 0 • written 5.0 years ago by • 0
0
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2
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1.3k
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problem about using cn.mops
cn.mops
updated 3.4 years ago by • 0 • written 5.3 years ago by • 0
0
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3
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1.1k
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Error in if (all(x <= minReadCount) & lambda <= minReadCount) { : missing value where TRUE/FALSE needed
cnmops cn.mops error
updated 5.4 years ago by 25k • written 5.4 years ago by • 0
1
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4
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1.1k
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cn.mops on CRAM files
cn.mops
updated 5.4 years ago by ▴ 540 • written 5.4 years ago by • 0
2
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3
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1.5k
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mosdepth output into cn.mops?
cn.mops
updated 5.6 years ago by ▴ 540 • written 5.6 years ago by • 0
0
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0
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788
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cn.mops normalization of multiple samples
cn.mops
5.8 years ago DannyM • 0
0
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0
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1.1k
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Mean and median values in cn.mops cnvs output
cn.mops referencecn.mops
updated 5.8 years ago by 0 • written 5.9 years ago by • 0
0
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3
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1.1k
views
tumor vs control: multiple samples
cn.mops
5.9 years ago • updated 5.8 years ago DannyM • 0
0
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1
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1.1k
views
cn.MOPS: Error in getReadCountsFromBAM
cn.mops
6.2 years ago laurabuggiotti • 0
0
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0
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1.1k
views
Doubt about the interpretation of cn.mops tumor vs normal results
cn.mops dnaseq bioinformatics
6.2 years ago Cased • 0
0
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0
replies
785
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How to interpret out of referencecn.mops
referencecn.mops cn.mops
6.3 years ago eddie.kaho.ho • 0
0
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18
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5.0k
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cn.MOPs: Error in value[[3L]](cond) :
cn.mops
updated 6.3 years ago by ▴ 540 • written 6.3 years ago by • 0
2
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3
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1.7k
views
Doubt about WL in cn.mops
dnacopy dnaseq genomic cn.mops cnv
updated 6.4 years ago by ▴ 540 • written 6.4 years ago by • 0
0
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1
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1.1k
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cn.mops: interpreting output when returnPosterior=TRUE
cn.mops
updated 6.5 years ago by ▴ 540 • written 6.5 years ago by • 0
0
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2
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1.2k
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best way to normalize for differences in sample read depth: normalize genome vs cn.MOPs
cn.mops normalization
updated 20 months ago by • 0 • written 6.6 years ago by • 0
1
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2
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2.0k
views
cn.MOPS error: Error in if (WL >= sl[i]) { : missing value where TRUE/FALSE needed
cn.mops
6.7 years ago hugo.magalhaes ▴ 10
0
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1
reply
1.2k
views
Inconsistent Warning: GRanges out of bounds
cn.mops granges trim Genomicranges-method
6.8 years ago znl207 • 0
0
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1
reply
1.1k
views
Error with plotting with target sequencing data
cn.mops
updated 6.8 years ago by ▴ 540 • written 6.8 years ago by • 0
2
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6
replies
2.9k
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Cn.mops error: Error in if (sum(rds.counts) == 0) { : missing value where TRUE/FALSE needed
software error cn.mops
updated 8 months ago by • 0 • written 6.8 years ago by ▴ 10
0
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5
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1.7k
views
Error when use getSegmentReadCountsFromBAM
targeted sequencing cn.mops
6.8 years ago jinxinhao1988 • 0
0
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2
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1.6k
views
cn.MOPs issue with "Error in if (all(segMedianT == 0))"
cn.mops cnv
updated 6.9 years ago by ▴ 540 • written 6.9 years ago by ▴ 20
0
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4
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1.5k
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Is cn.mops can be used for detecting CNV for targeted sequencing of 8M region
cn.mops
updated 6.9 years ago by ▴ 540 • written 6.9 years ago by • 0
5
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7
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1.7k
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about the runs with cn.mops
cn.mops referencecn.mops
7.2 years ago Bogdan ▴ 670
1
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2
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1.8k
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cn.MOPS - reporting log normalized read counts as table
cn.mops log normalized counts table
updated 7.3 years ago by ▴ 540 • written 7.3 years ago by • 0
0
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1
reply
1.2k
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getReadCountsFromBAM including bed information
cn.mops bed files getReadCountsFromBAM
7.3 years ago Pau Marc Muñoz Torres ▴ 20
5
votes
9
replies
2.1k
views
reduce function after combining 2 GRanges objects from cn.mops output
GRanges cn.mops
updated 7.4 years ago by ★ 11k • written 7.4 years ago by ▴ 110
2
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1
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1.2k
views
How to combine CNVDetectionResult objects in cn.mops package
cn.mops
updated 7.4 years ago by ▴ 540 • written 7.4 years ago by ▴ 110
0
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2
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1.3k
views
getReadCountsFromBAM and paired-end reads
cn.mops
7.4 years ago Alexandre Kuhn ▴ 20
4
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2
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1.6k
views
using cn.MOPS on WES data GERMLINE-TUMOR
cn.mops
7.4 years ago Bogdan ▴ 670
0
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2
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1.5k
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Conflict in cnvr and cnvs result from cn.mops
cn.mops
updated 7.4 years ago by ▴ 540 • written 7.5 years ago by • 0
0
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4
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1.5k
views
cn.mops encounter negative width problem
cn.mops referencecn.mops
updated 7.5 years ago by ▴ 540 • written 7.5 years ago by • 0
3
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1
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1.3k
views
R code for cn.mops -- if a chromosome does not have CNV ?
cn.mops referencecn.mops
updated 7.5 years ago by ▴ 540 • written 7.7 years ago by ▴ 670
3
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5
replies
1.7k
views
R code for cn.mops
cn.mops
updated 19 months ago by • 0 • written 7.7 years ago by ▴ 670
1
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1
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1.1k
views
which cn.mops function should I use
cn.mops
updated 7.5 years ago by ▴ 540 • written 7.5 years ago by • 0
0
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1
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1.2k
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cn.mops returning only "NA" as copy number
cn.mops
updated 7.7 years ago by ▴ 540 • written 7.7 years ago by • 0
0
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2
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1.6k
views
about an error in cn.MOPS : could not find symbol "recursive" in environment of the generic function
cn.MOPS
7.7 years ago Bogdan ▴ 670
4
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3
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1.5k
views
parameter "refSeqName" in function "getReadCountsFromBAM"
cn.mops
updated 7.7 years ago by ▴ 540 • written 8.2 years ago by • 0
0
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4
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1.5k
views
Call CNV in population with large depth variance
cn.mops
updated 7.8 years ago by ▴ 540 • written 7.8 years ago by • 0
4
votes
9
replies
2.6k
views
How to use cn.mops to detect CNVs from Targeted DNA Sequencing data?
cn.mops cnv targeted sequencing
updated 7.8 years ago by ▴ 540 • written 7.8 years ago by ▴ 20
0
votes
1
reply
991
views
Input (X) data type is not numeric if read from GRanges obj
cn.mops
updated 7.9 years ago by ▴ 540 • written 7.9 years ago by • 0
1
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2
replies
1.4k
views
cn.mops: NA in the output of referencecn.mops
cn.mops referencecn.mops
updated 8.0 years ago by ▴ 540 • written 8.0 years ago by ▴ 90
0
votes
2
replies
1.2k
views
about cn.MOPS: paired vs unpaired
cn.mops
updated 8.0 years ago by ▴ 540 • written 8.0 years ago by ▴ 670
50 results • Page 1 of 1
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Comment: ESTMATE, MCPcounter, EPIC, xCell input by Kang • 0
These are not, as far as I know, bioconductor packages. You should query on the websites for those specific software programs. @[mapquest][…
Comment: Robust way of dealing with low number of samples for Differential Gene Expressio by Kang • 0
I believe that pseudo-bulking is a strong way to approach DE, as long as it is possible to reliably identify the cell type across data and …
Comment: GOstats kegg analysis in wheat - help - none of the objects in the first column by GV Yoshikawa • 0
Thank you for the reply. I tried swapping columns before asking, it made no difference. head(keggframeData) path_id kegg…
Answer: Differential Expression Analysis with unbalanced batches without replication bet by Gordon Smyth 51k
> Is there an alternative model or approach in tools like edgeR, limma-voom, or DESeq2 or any other that can handle confounded batch effect…
Comment: BiomaRt Possible Ensembl SSL connectivity problems detected. by Adam • 0
I just found this workaround: httr::set_config(config(ssl_verifypeer = FALSE, ssl_verifyhost = FALSE)) at [this Stack Overflow link][…
Votes
A: Up/Down Regulated GeneList from edgeR and R
A: Up/Down Regulated GeneList from edgeR and R
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Answer: Combining RNAseq and microarray data using edgeR/limma-voom
Answer: How do I merge a list of GRanges?
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