VisCap
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pughlab
VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number variants (CNVs) from targeted next-generation sequencing data. Fo...
Dear all, I want to use VisCap for my run but I have the following error message : Attaching package: ‘gplots’ The following object is masked from ‘package:stats’: lowess Attaching...
I am trying to run VisCap for one of my sample and getting following error, which i can not understand > "/data/Duplication/VisCap-master/MD36//MD36.sample_interval_summary" > Error in mat.cov[grep("X", rownames(mat.cov), invert = TRUE),...
I have noticed getting always normal results with mislabeled plots when '**chr**' word is within the interval list file provided, or in GATK DepthOfCoverage output files (*sample_interval_summary). Please be sure...
I added code for working with bed interval file is including "chr" prefix chromosome such as example interval files in Viscap github page( https://github.com/pughlab/VisCap/wiki/Interval-file ).
Dear all, I want to use VisCap for my run but I have the following error message : [1] "./coverage_files/run_11.sample_interval_summary" Error in matrix(tab[, col_name], dimnames = list(rownames(tab), new_head)) : length...
Dear all, Could anyone deposit test datas which works well to test my Viscap installation and scripts please ? I have read the paper and do not find some datas...
Hi VisCap seems to be an interesting tool. I want to try it out but am still not clear how to start. The first question is: What is the exact...
Hi, I successfully ran Viscap for a number of individuals sequenced with Trusight cancer panel (~90 genes) Now, I´m trying to run Viscap for eight individuals sequenced with Trusight One...
Hello, thanks for letting your project open. I'm trying to test it and I'm facing this warnings: ``` Warning messages: 1: In image.default(z = matrix(z, ncol = 1), col =...
Hi, I'm really looking forward to try VisCap on the samples from our lab. However, for a non-expert R user it is hard to figure out how to run and...
