first commit to github
Splitting & Editing Filter Scripts
Trimmed back the functions in Filter Scripts
edited mutect calls
fixed update script
added NF/NC comparison to mutect
added --enable_extended_output
update to include curl
insertsize commands added
cares added
fixed script for args
herp
fixed insert size...again
shebang added
Picard Insert Size SJM log statement added
Fixing separation of filters/gatk
Commented unnecessary SJM_JOB_AFTER commands from split scripts
fixed SJM output filenames GATKprep.sh
changed non GATK prep scripts to not need to convert the comma-sep
values
script fixes