Ubuntu
pftools package

pftools 3.2.8-1 source package in Ubuntu

Changelog

pftools (3.2.8-1) unstable; urgency=medium

  * Team Upload.
  [ Steffen Moeller ]
  * Fix watchfile to detect new versions on github (routine-update)

  [ Andreas Tille ]
  * New upstream version
  * Standards-Version: 4.6.0 (routine-update)
  * Drop patch applied upstream

  [ Nilesh Patra ]
  * d/rules:
    + Build without regex support
    + Remove test.sh command manual run
    + Install examples at right location
  * d/control: Remove B-D on libpcre2-dev (Closes: #1000002)
  * Tweak autopkgtest to get it working

 -- Nilesh Patra <email address hidden>  Tue, 25 Jan 2022 01:49:00 +0530

Upload details

Uploaded by:
Debian Med
Uploaded to:
Sid
Original maintainer:
Debian Med
Architectures:
any-amd64
Section:
misc
Urgency:
Medium Urgency

See full publishing history Publishing

Series Pocket Published Component Section

Builds

Jammy: [FULLYBUILT] amd64

Downloads

File Size SHA-256 Checksum
pftools_3.2.8-1.dsc 2.0 KiB c127e643179ba41b69d100acd4036078af0955bbf3499348968453f614f0001c
pftools_3.2.8.orig.tar.gz 42.0 MiB aefc1ef07fb70b49d4e6ee0841796342c32245ce699287b12ff03e5613f771bf
pftools_3.2.8-1.debian.tar.xz 6.6 KiB 69bf1301613edd38dc8fa24f94f87d12efd1e18fd2a1b995c6d6cc8405e6c308

Available diffs

No changes file available.

Binary packages built by this source

pftools: build and search protein and DNA generalized profiles

 The pftools package contains all the software necessary to build protein
 and DNA generalized profiles and use them to scan and align sequences,
 and search databases.
 .
 File formats used by the pftools
  * Generalized profiles format and syntax.
  * The multiple sequence alignment format (PSA).
  * The extended header multiple sequence alignment format (XPSA).
 .
 Programs to build generalized profiles
  pfmake
    Build a profile from a multiple sequence alignment.
  pfscale
    Fit parameters of an extreme-value distribution to a profile score list.
  pfw
    Weight sequences of a multiple sequence alignment to correct for
    sampling bias.
 .
 Programs to search with generalized profiles
  pfsearch / pfsearchV3
    Search a protein or DNA sequence library for sequence segments matching
    a profile (V3 is the new version of this tool).
  pfscan
    Scan a protein or DNA sequence with a profile library
 .
 Conversion programs
  psa2msa
    Reformat PSA file to Pearson/Fasta multiple sequence alignment file.
  ptof
    Convert a protein profile into a frame-search profile to search DNA
    sequences. To be used with 2ft.
  2ft
    Converts both strands of DNA into so-called interleaved
    frame-translated DNA sequences to search with protein profiles. To be
    used with ptof.
  6ft
    Translates all six reading frames of a double-stranded DNA sequence
    into individual protein sequences.
  pfgtop
    Convert a profile in GCG format into PROSITE format.
  pfhtop
    Convert a HMMER1 ASCII-formatted HMM into an equivalent PROSITE profile.
  ptoh
    Converts a generalized profile into an approximately equivalent HMM
    profile in HMMER1 format (can be read by the hmmconvert program from
    the HMMER2 package).

pftools-dbgsym: debug symbols for pftools