Uppsala Multidisciplinary Center for Advanced Computational Science

[bio] BAM-matcher installed


Determine whether two BAM files contain reads sequenced from the same sample or patient

BAM-matcher has been installed on Milou. This is a new module, available as "BAM-matcher/20160611" (the version number is the source download date). A variant caller should be loaded separately: GATK, VarScan and freebayes. A local config file is needed, as described on the package site except that CACHE_DIR should be local to your account or project, not global. /wesleys

I left the selection of variant caller as an option which has to be loaded separately. Note that a configuration file is needed, with information about the selected variant caller and other details. Note that CACHE_DIR should be set to something appropriate to your account or project since it seems unlikely that a global folder will be used.