phyx_0.999+ds-1_amd64.deb


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Description

phyx - UNIX-style phylogenetic analyses on trees and sequences

Property Value
Distribution Ubuntu 19.04 (Disco Dingo)
Repository Ubuntu Universe amd64
Package filename phyx_0.999+ds-1_amd64.deb
Package name phyx
Package version 0.999+ds
Package release 1
Package architecture amd64
Package type deb
Category universe/science
Homepage https://github.com/FePhyFoFum/phyx
License -
Maintainer Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>
Download size 1.80 MB
Installed size 14.89 MB
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.

Alternatives

Package Version Architecture Repository
phyx_0.999+ds-1_i386.deb 0.999+ds i386 Ubuntu Universe
phyx - - -

Requires

Name Value
libarmadillo9 >= 1:9.100.6+dfsg
libc6 >= 2.23
libgcc1 >= 1:3.0
libgomp1 >= 4.9
libnlopt0 >= 2.2.4
libstdc++6 >= 5.2

Download

Type URL
Mirror archive.ubuntu.com
Binary Package phyx_0.999+ds-1_amd64.deb
Source Package phyx

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install phyx deb package:
    # sudo apt-get install phyx

Files

Path
/usr/bin/pxaa2cdn
/usr/bin/pxbdfit
/usr/bin/pxbdsim
/usr/bin/pxboot
/usr/bin/pxbp
/usr/bin/pxcat
/usr/bin/pxclsq
/usr/bin/pxcltr
/usr/bin/pxcolt
/usr/bin/pxconsq
/usr/bin/pxcontrates
/usr/bin/pxfqfilt
/usr/bin/pxlog
/usr/bin/pxlssq
/usr/bin/pxlstr
/usr/bin/pxmrca
/usr/bin/pxmrcacut
/usr/bin/pxmrcaname
/usr/bin/pxnj
/usr/bin/pxnw
/usr/bin/pxrecode
/usr/bin/pxrevcomp
/usr/bin/pxrls
/usr/bin/pxrlt
/usr/bin/pxrmk
/usr/bin/pxrms
/usr/bin/pxrmt
/usr/bin/pxrr
/usr/bin/pxs2fa
/usr/bin/pxs2nex
/usr/bin/pxs2phy
/usr/bin/pxseqgen
/usr/bin/pxssort
/usr/bin/pxsstat
/usr/bin/pxstrec
/usr/bin/pxsw
/usr/bin/pxt2new
/usr/bin/pxtcol
/usr/bin/pxtcomb
/usr/bin/pxtlate
/usr/bin/pxtrt
/usr/bin/pxtscale
/usr/bin/pxupgma
/usr/bin/pxvcf2fa
/usr/share/doc-base/phyx
/usr/share/doc/phyx/Phyxed_Manual.pdf
/usr/share/doc/phyx/changelog.Debian.gz
/usr/share/doc/phyx/copyright
/usr/share/doc/phyx/examples/manuscript_example/test.fa.gz
/usr/share/doc/phyx/examples/manuscript_example/test0.fa.gz
/usr/share/doc/phyx/examples/manuscript_example/test1.fa.gz
/usr/share/doc/phyx/examples/manuscript_example/test2.fa.gz
/usr/share/doc/phyx/examples/manuscript_example/test3.fa.gz
/usr/share/doc/phyx/examples/manuscript_example/test4.fa.gz
/usr/share/doc/phyx/examples/pxaa2cdn_example/AA_Alignment.fa.gz
/usr/share/doc/phyx/examples/pxaa2cdn_example/Unaligned_Nucleotide.fa.gz
/usr/share/doc/phyx/examples/pxbdfit_example/bd.tre
/usr/share/doc/phyx/examples/pxboot_example/Alignment
/usr/share/doc/phyx/examples/pxboot_example/parts
/usr/share/doc/phyx/examples/pxbp_example/Tree.tre
/usr/share/doc/phyx/examples/pxbp_example/bp_output
/usr/share/doc/phyx/examples/pxbpseq_example/Sequences.fa.gz
/usr/share/doc/phyx/examples/pxbpseq_example/out
/usr/share/doc/phyx/examples/pxbpseq_example/ultra_100.tre
/usr/share/doc/phyx/examples/pxcat_example/Concat_Sequence1.fas
/usr/share/doc/phyx/examples/pxcat_example/Concat_Sequence1.phy
/usr/share/doc/phyx/examples/pxcat_example/Concat_Sequence2.fa
/usr/share/doc/phyx/examples/pxcat_example/Concat_Sequence2.phy
/usr/share/doc/phyx/examples/pxclsq_example/Alignment
/usr/share/doc/phyx/examples/pxconsq_example/Alignment
/usr/share/doc/phyx/examples/pxcontrates_example/contrates_file.txt
/usr/share/doc/phyx/examples/pxcontrates_example/contrates_tree.tre
/usr/share/doc/phyx/examples/pxfqfilt_example/fqfilt_test.fastq.gz
/usr/share/doc/phyx/examples/pxlog_example/run1.trees.gz
/usr/share/doc/phyx/examples/pxlog_example/run2.trees.gz
/usr/share/doc/phyx/examples/pxlssq_example/Alignment
/usr/share/doc/phyx/examples/pxlstr_example/Tree.tre
/usr/share/doc/phyx/examples/pxmrca_example/mrca.txt
/usr/share/doc/phyx/examples/pxmrca_example/mrca_test.tre
/usr/share/doc/phyx/examples/pxmrcacut_example/mrca.txt
/usr/share/doc/phyx/examples/pxmrcacut_example/mrca_test.tre
/usr/share/doc/phyx/examples/pxmrcacut_example/out.txt
/usr/share/doc/phyx/examples/pxmrcaname_example/mrca.txt
/usr/share/doc/phyx/examples/pxmrcaname_example/mrca_test.tre
/usr/share/doc/phyx/examples/pxmrcaname_example/named_mrca.txt.gz
/usr/share/doc/phyx/examples/pxnj_example/Alignment.aln.gz
/usr/share/doc/phyx/examples/pxnw_examples/Alignment.aln.gz
/usr/share/doc/phyx/examples/pxrecode_example/Nucleotide.fa.gz
/usr/share/doc/phyx/examples/pxrevcomp_example/Nucleotide.fa.gz
/usr/share/doc/phyx/examples/pxrls_example/newnames.txt
/usr/share/doc/phyx/examples/pxrls_example/oldnames.txt
/usr/share/doc/phyx/examples/pxrls_example/test.fa
/usr/share/doc/phyx/examples/pxrlt_example/kingdoms.newnames.txt
/usr/share/doc/phyx/examples/pxrlt_example/kingdoms.oldnames.txt
/usr/share/doc/phyx/examples/pxrlt_example/kingdoms.tre
/usr/share/doc/phyx/examples/pxrmk_example/knuckle_tree.tre
/usr/share/doc/phyx/examples/pxrms_example/Nucleotide.fa.gz
/usr/share/doc/phyx/examples/pxrms_example/taxa_to_delete.txt
/usr/share/doc/phyx/examples/pxrmt_example/rmt_test.tre
/usr/share/doc/phyx/examples/pxrmt_example/taxa_to_delete.txt
/usr/share/doc/phyx/examples/pxrr_example/out.tre
/usr/share/doc/phyx/examples/pxrr_example/rr_test.tre
/usr/share/doc/phyx/examples/pxs2fa_pxs2phy_pxs2nex_example/Alignment.gz
/usr/share/doc/phyx/examples/pxseqgen_example/goo.fa.gz
/usr/share/doc/phyx/examples/pxseqgen_example/seqgen_test.tre
/usr/share/doc/phyx/examples/pxssort_example/Codon.fa
/usr/share/doc/phyx/examples/pxsstat_example/Bollback_2002_MBE.fa
/usr/share/doc/phyx/examples/pxstrec_example/config_stmap
/usr/share/doc/phyx/examples/pxstrec_example/out
/usr/share/doc/phyx/examples/pxstrec_example/test.data.narrow
/usr/share/doc/phyx/examples/pxstrec_example/test.tre
/usr/share/doc/phyx/examples/pxsw_example/Alignment.fa.gz
/usr/share/doc/phyx/examples/pxt2new_example/Tree.nex
/usr/share/doc/phyx/examples/pxtlate_example/Sequence.fa
/usr/share/doc/phyx/examples/pxtscale_example/ultra.tre
/usr/share/doc/phyx/examples/pxupgma_example/drosophila.aln.gz
/usr/share/doc/phyx/examples/pxvcf2fa_example/vcf_file.gz
/usr/share/man/man1/pxaa2cdn.1.gz
/usr/share/man/man1/pxbdfit.1.gz
/usr/share/man/man1/pxbdsim.1.gz
/usr/share/man/man1/pxboot.1.gz
/usr/share/man/man1/pxbp.1.gz
/usr/share/man/man1/pxcat.1.gz
/usr/share/man/man1/pxclsq.1.gz
/usr/share/man/man1/pxconsq.1.gz
/usr/share/man/man1/pxcontrates.1.gz
/usr/share/man/man1/pxfqfilt.1.gz
/usr/share/man/man1/pxlog.1.gz
/usr/share/man/man1/pxlssq.1.gz
/usr/share/man/man1/pxlstr.1.gz
/usr/share/man/man1/pxmrca.1.gz
/usr/share/man/man1/pxmrcacut.1.gz
/usr/share/man/man1/pxmrcaname.1.gz
/usr/share/man/man1/pxnj.1.gz
/usr/share/man/man1/pxnw.1.gz
/usr/share/man/man1/pxrecode.1.gz
/usr/share/man/man1/pxrevcomp.1.gz
/usr/share/man/man1/pxrls.1.gz
/usr/share/man/man1/pxrlt.1.gz
/usr/share/man/man1/pxrms.1.gz
/usr/share/man/man1/pxrmt.1.gz
/usr/share/man/man1/pxrr.1.gz
/usr/share/man/man1/pxs2fa.1.gz
/usr/share/man/man1/pxs2nex.1.gz
/usr/share/man/man1/pxs2phy.1.gz
/usr/share/man/man1/pxseqgen.1.gz
/usr/share/man/man1/pxstrec.1.gz
/usr/share/man/man1/pxsw.1.gz
/usr/share/man/man1/pxt2new.1.gz
/usr/share/man/man1/pxtlate.1.gz
/usr/share/man/man1/pxtscale.1.gz
/usr/share/man/man1/pxupgma.1.gz
/usr/share/man/man1/pxvcf2fa.1.gz

Changelog

2018-10-15 - Andreas Tille <tille@debian.org>
phyx (0.999+ds-1) unstable; urgency=medium
* New upstream version
2018-09-08 - Andreas Tille <tille@debian.org>
phyx (0.99+ds-1) unstable; urgency=medium
* Initial release (Closes: #855597)

See Also

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picard_2.1.2-1_amd64.deb Next-Generation MusicBrainz audio files tagger
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picprog_1.9.1-4_amd64.deb Microchip PIC serial programmer software
pictor-unload_2.38-0ubuntu2_all.deb tool for unloading and renaming pictures from flash media
pictor_2.38-0ubuntu2_all.deb web application for browsing your pictures
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