phyx

UNIX-style phylogenetic analyses on trees and sequences

Command lineScience

Install

Not tested on a device yet. What that means

Commands in the package

pxaa2cdn
pxbdfit
pxbdsim
pxboot
pxbp
pxcat
pxclsq
pxcltr
pxcolt
pxcomp
pxconsq
pxcontrates
pxfqfilt
pxlog
pxlssq
pxlstr
pxmono
pxmrca
pxmrcacut
pxmrcaname
pxnj
pxnw
pxpoly
pxrecode
pxrevcomp
pxrls
pxrlt
pxrmk
pxrms
pxrmt
pxrr
pxs2fa
pxs2nex
pxs2phy
pxseqgen
pxssort
pxsstat
pxstrec
pxsw
pxt2new

And 9 more.

About phyx

From Debian's package description

phyx provides a convenient, lightweight and inclusive toolkit consisting of programs spanning the wide breadth of programs utilized by researchers performing phylogenomic analyses. Modeled after Unix/GNU/Linux command line tools, individual programs perform a single task and operate on standard I/O streams. A result of this stream-centric approach is that, for most programs, only a single sequence or tree is in memory at any moment. Thus, large datasets can be processed with minimal memory requirements. phyx’s ever-growing complement of programs consists of over 35 programs focused on exploring, manipulating, analyzing and simulating phylogenetic objects (alignments, trees and MCMC logs). As with standard Unix command line tools, these programs can be piped (together with non-phyx tools), allowing the easy construction of efficient analytical pipelines.

From Debian's description of the phyx package, under that package's license.

Dependencies

Depends on

libarmadillo14
libc6
libgcc-s1
libgomp1
libnlopt0
libstdc++6
python3

Related apps

figtreegraphical phylogenetic tree viewerCommand line
raxmlRandomized Axelerated Maximum Likelihood of phylogenetic treesCommand line
metaphlanMetagenomic Phylogenetic AnalysisCommand line
phastphylogenetic analysis with space/time modelsCommand line
fasttreephylogenetic trees from alignments of nucleotide or protein sequencesCommand line
graphlancircular representations of taxonomic and phylogenetic treesCommand line

All Linux science apps

Sources and licenses

Name: the Debian package name.
Summary: Debian's short description of the phyx package, under that package's license.
Description: Debian's description of the phyx package, under that package's license.
Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
Popularity: Debian Popularity Contest counts.