.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.47.13.
.TH PXVCF2FA "1" "July 2021" "pxvcf2fa 1.3" "User Commands"
.SH NAME
pxvcf2fa \- manual page for pxvcf2fa 1.3
.SH SYNOPSIS
.B pxvcf2fa
[\fI\,OPTIONS\/\fR]...
.SH DESCRIPTION
Convert vcf file to fasta.
Currently only handles haploid data; phased data will come soon.
Data can be read from a file or STDIN.
.SH OPTIONS
.TP
\fB\-s\fR, \fB\-\-seqf\fR=\fI\,FILE\/\fR
input vcf file, STDIN otherwise
.TP
\fB\-u\fR, \fB\-\-uppercase\fR
export characters in uppercase
.TP
\fB\-o\fR, \fB\-\-outf\fR=\fI\,FILE\/\fR
output fasta sequence file, STOUT otherwise
.TP
\fB\-h\fR, \fB\-\-help\fR
display this help and exit
.TP
\fB\-V\fR, \fB\-\-version\fR
display version and exit
.TP
\fB\-C\fR, \fB\-\-citation\fR
display phyx citation and exit
.SH CITATION
Brown, Joseph W., Joseph F. Walker, and Stephen A. Smith. 2017. Phyx: phylogenetic tools for unix. Bioinformatics 33(12): 1886-1888. https://doi.org/10.1093/bioinformatics/btx063.
.SH AUTHOR
Written by Joseph W. Brown
.SH "REPORTING BUGS"
Report bugs to: <https://github.com/FePhyFoFum/phyx/issues>
phyx home page: <https://github.com/FePhyFoFum/phyx>
.SH COPYRIGHT
Copyright \(co 2013\-2021 FePhyFoFum
License GPLv3