Add 2 arguments (gnomadGenome and gnomadExome) to customize gnomAD output

Author: thomasguignard

README.md

@@ -201,6 +201,8 @@ Command line to use Captain ACHAB
                         --poorCoverageFile <poor Coverage File (it will annotate OMIM genes if present in 4th column -requires OMIM genemap2 File- and create an excel file )>
                         --genemap2File <OMIM genemap2 file (it will help to annotate OMIM genes in poor coverage file )>
                         --skipCaseWT (only if trio mode is activated, it will skip variant if case genotype is 0/0 )
+                        --gnomadGenome <comma separated list of gnomad genome annotation fields that will be displayed as gnomAD comments. First field of the list will be filtered regarding to popFreqThr argument, and it will be considered as column name, but it must be different from the exome one. (default fields are hard-coded gnomAD_genome_ALL like)  > 
+                        --gnomadExome <comma separated list of gnomad exome annotation fields that will be displayed as gnomAD comments. First field of the list will be treated as column name, but it must be different from the genome one. (default fields are hard-coded gnomAD_exome_ALL like) >
                         --hideACMG (ACMG tab will be empty but information will be reported in the gene comment)
                         --help (print this command usage)