ClinSV
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KCCG
Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
Hi, this is really good tool, but can it be used to process bam file map to hg19 or other build except GRCH？ Do you recommend what to do, if...
Hi! I'm new to bioinformatics so hope my procedure and questions are well explained. I tried to use the docker image for clinSV but I got a message pointing out...
hello, I am trying to run your docker image for clinsv1.0. following the steps in https://github.com/KCCG/ClinSV for docker with the sample NA12878_b38, all works fine. when I tried my *.bam...
When running ClinSV, the sample info.txt file created is blank. If manually making one what should be included?
1） I had successfully downloaed and installed in 12-1-2022, following Linux Native Download precompiled ClinSV bundle for CentOS 6.8 x86_64 wget https://nci.space/clinsv/ClinSV_x86_64_v0.9.tar.gz tar zxf ClinSV_x86_64_v0.9.tar.gz clinsv_path=$PWD/clinsv export PATH=$clinsv_path/bin:$PATH clinsv -r...
When I run ClinSV I get the following error: mkdir /WORKSPACE: Read-only file system at /opt/clinsv/bin/clinsv line 57.
Dear Andre, I installed Singularity by root and download clinsv.sif, refdata and NA12878_v0.9.bam as suggested. Then I run the following code: ` $singularity run clinsv.sif \ -i "$input_path/*.bam" \ -ref...
Dear KCCG group, I installed ClinSV and it worked well when i type "Clinsv help". ``` ### This script runs ClinSV on a single node ### Version: 0.9 2019_02_13 Author:...
Hello I am a beginner in bioinformatic and the use of command line tools. I am trying to build the image docker using the Dockerfile. The process failed at that...
When you run the docker version, v1.0: docker pull mrbradley2/clinsv:v1.0 sampleInfo.txt: NG130ECKCK rg lb /app/input/NG130ECKCK.bam I also had to make links to the bam files within the alignments\NG130ECKCK folder so...
