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PXCLSQ(1) User Commands PXCLSQ(1)

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.
May 2018 pxclsq 0.99+ds