NAME

pxclsq - Cleans alignments by removing positions with too much ambiguous data.

SYNOPSIS

pxclsq [OPTION]...

DESCRIPTION

Cleans alignments by removing positions with too much ambiguous data. This will take fasta, fastq, phylip, and nexus inputs. Results are written in fasta format.

-s, --seqf=FILE

input sequence file, stdin otherwise

-o, --outf=FILE

output fasta file, stout otherwise

-p, --prop=DOUBLE

proportion required to be present, default=0.5

-a, --aminoacid

force interpret as protein (if inference fails)

-v, --verbose

more verbose output (i.e. if entire seqs are removed)

-h, --help

display this help and exit

-V, --version

display version and exit

REPORTING BUGS

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

AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.