.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.47.10.
.TH CNVKIT_IMPORT-THETA "1" "March 2019" "cnvkit_import-theta 0.9.5" "User Commands"
.SH NAME
cnvkit_import-theta \- Convert THetA output to a BED-like, CNVkit-like tabular format.

    Equivalently, use the THetA results file to convert CNVkit .cns segments to
    integer copy number calls.
    
.SH DESCRIPTION
usage: cnvkit import\-theta [\-h] [\-\-ploidy PLOIDY] [\-d DIRECTORY]
.IP
tumor_cns theta_results
.SS "positional arguments:"
.IP
tumor_cns
theta_results
.SS "optional arguments:"
.TP
\fB\-h\fR, \fB\-\-help\fR
show this help message and exit
.TP
\fB\-\-ploidy\fR PLOIDY
Ploidy of normal cells. [Default: 2]
.TP
\fB\-d\fR DIRECTORY, \fB\-\-output\-dir\fR DIRECTORY
Output directory name.