.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.47.4.
.TH VFDB_CDHIT_TO_CSV "1" "June 2016" "VFDB_cdhit_to_csv 0.1.8" "User Commands"
.SH NAME
VFDB_cdhit_to_csv \- Parse cdhit results
.SH SYNOPSIS
.B VFDB_cdhit_to_csv
[\-h] \fB\-\-cluster_file\fR CLUSTER_FILE \fB\-\-infile\fR INFILE
\fB\-\-outfile\fR OUTFILE
.SH DESCRIPTION
This tool is part of the SRST2 suite.
.P
Output a comma-separated table of alleles, their inferred gene name (from annotation)
and their 90% cluster from CD-HIT analysis
.SH OPTIONS
.SS "optional arguments:"
.TP
\fB\-h\fR, \fB\-\-help\fR
show this help message and exit
.TP
\fB\-\-cluster_file\fR CLUSTER_FILE
cd hit output file (.clstr)
.TP
\fB\-\-infile\fR INFILE
raw sequences file that was input to cdhit (fasta)
.TP
\fB\-\-outfile\fR OUTFILE
output file (csv)
.SH AUTHOR
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.