Index

Symbols

--debug ngs-pl command line option ngs-pl-generate-links command line option ngs-pl-run-targeted-variant-caller command line option --help ngs-pl command line option ngs-pl-generate-links command line option ngs-pl-run-targeted-variant-caller command line option --list ngs-pl command line option --outdir ngs-pl-generate-links command line option ngs-pl-run-targeted-variant-caller command line option --snakefile ngs-pl-run-targeted-variant-caller command line option

--target ngs-pl-run-targeted-variant-caller command line option -h ngs-pl command line option ngs-pl-generate-links command line option ngs-pl-run-targeted-variant-caller command line option -i ngs-pl command line option -l ngs-pl command line option -o ngs-pl-generate-links command line option ngs-pl-run-targeted-variant-caller command line option -t ngs-pl-run-targeted-variant-caller command line option

E

environment variable NGS_PIPELINE_BASE NGS_PIPELINE_CMD_MODS NGS_PIPELINE_LOGLEVEL NGS_PROMPT NGSENV_BASEDIR SNAKEMAKE_PROFILE

N

ngs-pl command line option --debug --help --list -h -i -l ngs-pl-generate-links command line option --debug --help --outdir -h -o

ngs-pl-run-targeted-variant-caller command line option --debug --help --outdir --snakefile --target -h -o -t target targeted_variant_caller_wf

T

target ngs-pl-run-targeted-variant-caller command line option

targeted_variant_caller_wf ngs-pl-run-targeted-variant-caller command line option