Hi community :)
We project to develop an open source application to analyze bam file with different modules (variant calling , CHiP seq enrichment and other current NGS analysis). The main goal is to generate a database and give to the user a simple way to compare different sample result analyzed with the same parameters. So the user with a python interface will run easily NGS analysis with few enter files bam/cram and bed files.
First question : is it to your opinion something which could be useful ?
Second question : i'm not sure to know how to deal with software installation needed for the application (bwa, variant caller, samtools etc) to make it easy to install for the user. How to manage update of tool installation and right on the OS (linus of course :) ) ?. Do you have advice for this kind thinks ?
Thanks an advance