.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.47.10.
.TH CNVKIT_ACCESS "1" "March 2019" "cnvkit_access 0.9.5" "User Commands"
.SH NAME
cnvkit_access \- List the locations of accessible sequence regions in a FASTA file.
.SH DESCRIPTION
usage: cnvkit access [\-h] [\-s MIN_GAP_SIZE] [\-x EXCLUDE] [\-o FILENAME]
.IP
fa_fname
.SS "positional arguments:"
.TP
fa_fname
Genome FASTA file name
.SS "optional arguments:"
.TP
\fB\-h\fR, \fB\-\-help\fR
show this help message and exit
.TP
\fB\-s\fR MIN_GAP_SIZE, \fB\-\-min\-gap\-size\fR MIN_GAP_SIZE
Minimum gap size between accessible sequence regions.
Regions separated by less than this distance will be
joined together. [Default: 5000]
.TP
\fB\-x\fR EXCLUDE, \fB\-\-exclude\fR EXCLUDE
Additional regions to exclude, in BED format. Can be
used multiple times.
.TP
\fB\-o\fR FILENAME, \fB\-\-output\fR FILENAME
Output file name