---
name: "pxs2nex"
section: "1"
platform: "linux"
package: "phyx"
version: "1.3.2+ds-1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/pxs2nex"
---

# pxs2nex(1)

convert seqfiles from nexus, phylip, or fastq to nexus

## NAME

pxs2nex - convert seqfiles from nexus, phylip, or fastq to nexus

## SYNOPSIS

**pxs2nex** \[*OPTIONS*\]...

## DESCRIPTION

Convert seqfiles from nexus, phylip, or fastq to nexus. Can read from STDIN or file.

- **-s**, **--seqf**=*FILE*

  input sequence file, STDIN otherwise

- **-u**, **--uppercase**

  export characters in uppercase

- **-o**, **--outf**=*FILE*

  output sequence file, STOUT otherwise

- **-h**, **--help**

  display this help and exit

- **-V**, **--version**

  display version and exit

- **-C**, **--citation**

  display phyx citation and exit

## 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.

## AUTHOR

Written by Stephen A. Smith (blackrim), Joseph W. Brown

## REPORTING BUGS

Report bugs to: \<https://github.com/FePhyFoFum/phyx/issues\> phyx home page: \<https://github.com/FePhyFoFum/phyx\>

## COPYRIGHT

Copyright © 2013-2024 FePhyFoFum License GPLv3