.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.47.10.
.TH CNVKIT_TARGET "1" "March 2019" "cnvkit_target 0.9.5" "User Commands"
.SH NAME
cnvkit_target \- Transform bait intervals into targets more suitable for CNVkit.
.SH DESCRIPTION
usage: cnvkit target [\-h] [\-\-annotate ANNOTATE] [\-\-short\-names] [\-\-split]
.TP
[\-a AVG_SIZE] [\-o FILENAME]
interval
.SS "positional arguments:"
.TP
interval
BED or interval file listing the targeted regions.
.SS "optional arguments:"
.TP
\fB\-h\fR, \fB\-\-help\fR
show this help message and exit
.TP
\fB\-\-annotate\fR ANNOTATE
Use gene models from this file to assign names to the
target regions. Format: UCSC refFlat.txt or
ensFlat.txt file (preferred), or BED, interval list,
GFF, or similar.
.TP
\fB\-\-short\-names\fR
Reduce multi\-accession bait labels to be short and
consistent.
.TP
\fB\-\-split\fR
Split large tiled intervals into smaller, consecutive
targets.
.TP
\fB\-a\fR AVG_SIZE, \fB\-\-avg\-size\fR AVG_SIZE
Average size of split target bins (results are
approximate). [Default: 266.6666666666667]
.TP
\fB\-o\fR FILENAME, \fB\-\-output\fR FILENAME
Output file name.