pxrms1
Remove sequences by label
Usage
pxrms [OPTIONS] ...
Overview
Remove sequences by label. This will take fasta, fastq, phylip, and nexus formats from a file or STDIN. Results are written in fasta format.
Options
-
-s, --seqf=FILE -
input nucleotide sequence file, STDIN otherwise
-
-n, --names=CSL -
names sep by commas (NO SPACES!)
-
-f, --namesf=FILE -
names in a file (each on a line)
-
-r, --regex=STRING -
match tip labels by a regular expression
-
-c, --comp -
take the complement (i.e. remove any taxa not in list)
-
-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.
History
- Debian 13 (Trixie): the text shown here
- Debian 12 (Bookworm)
- Debian 10 (Buster)
--citation since Debian 12 (Bookworm);
--comp since Debian 12 (Bookworm);
--regex since Debian 12 (Bookworm);
-C since Debian 12 (Bookworm);
-c since Debian 12 (Bookworm);
-r since Debian 12 (Bookworm).