CNVKIT_IMPORT-PICARD

NAME

cnvkit_import-picard - Convert Picard CalculateHsMetrics tabular output to CNVkit .cnn files.

The input file is generated by the PER_TARGET_COVERAGE option in the
CalculateHsMetrics script in Picard tools.

If ’antitarget’ is in the input filename, the generated output filename will
have the suffix ’.antitargetcoverage.cnn’, otherwise ’.targetcoverage.cnn’.

DESCRIPTION

usage: cnvkit import-picard [-h] [-d DIRECTORY] targets [targets ...]

positional arguments:

targets

Sample coverage .csv files (target and antitarget).

options:

-h, --help

show this help message and exit

-d DIRECTORY, --output-dir DIRECTORY

Output directory name.