python-pbalign_0.3.0-1_all.deb


Advertisement

Description

python-pbalign - map Pacific Biosciences reads to reference DNA sequences (Python2)

Property Value
Distribution Ubuntu 18.04 LTS (Bionic Beaver)
Repository Ubuntu Universe i386
Package filename python-pbalign_0.3.0-1_all.deb
Package name python-pbalign
Package version 0.3.0
Package release 1
Package architecture all
Package type deb
Category universe/python
Homepage https://github.com/PacificBiosciences/pbalign
License -
Maintainer Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>
Download size 36.32 KB
Installed size 225.00 KB
pbalign aligns PacBio reads to reference sequences, filters aligned
reads according to user-specific filtering criteria, and converts the
output to either the SAM format or PacBio Compare HDF5 (e.g., .cmp.h5)
format.
pbalign is part of the SMRTAnalysis suite. This package provides the
Python library backend.

Alternatives

Package Version Architecture Repository
python-pbalign_0.3.0-1_all.deb 0.3.0 all Ubuntu Universe
python-pbalign - - -

Requires

Name Value
blasr >= 5.3+0
python-pbcommand -
python-pbcore -
python-pysam -
python:any >= 2.7.5-5~
python:any << 2.8

Download

Type URL
Mirror archive.ubuntu.com
Binary Package python-pbalign_0.3.0-1_all.deb
Source Package pbalign

Install Howto

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

Files

Path
/usr/lib/python2.7/dist-packages/pbalign/__init__.py
/usr/lib/python2.7/dist-packages/pbalign/bampostservice.py
/usr/lib/python2.7/dist-packages/pbalign/ccs.py
/usr/lib/python2.7/dist-packages/pbalign/filterservice.py
/usr/lib/python2.7/dist-packages/pbalign/options.py
/usr/lib/python2.7/dist-packages/pbalign/pbalignfiles.py
/usr/lib/python2.7/dist-packages/pbalign/pbalignrunner.py
/usr/lib/python2.7/dist-packages/pbalign/service.py
/usr/lib/python2.7/dist-packages/pbalign-0.3.0.egg-info/PKG-INFO
/usr/lib/python2.7/dist-packages/pbalign-0.3.0.egg-info/dependency_links.txt
/usr/lib/python2.7/dist-packages/pbalign-0.3.0.egg-info/entry_points.txt
/usr/lib/python2.7/dist-packages/pbalign-0.3.0.egg-info/not-zip-safe
/usr/lib/python2.7/dist-packages/pbalign-0.3.0.egg-info/requires.txt
/usr/lib/python2.7/dist-packages/pbalign-0.3.0.egg-info/top_level.txt
/usr/lib/python2.7/dist-packages/pbalign/alignservice/__init__.py
/usr/lib/python2.7/dist-packages/pbalign/alignservice/align.py
/usr/lib/python2.7/dist-packages/pbalign/alignservice/blasr.py
/usr/lib/python2.7/dist-packages/pbalign/alignservice/bowtie.py
/usr/lib/python2.7/dist-packages/pbalign/alignservice/fastabasedalign.py
/usr/lib/python2.7/dist-packages/pbalign/alignservice/gmap.py
/usr/lib/python2.7/dist-packages/pbalign/tasks/__init__.py
/usr/lib/python2.7/dist-packages/pbalign/tasks/consolidate_alignments.py
/usr/lib/python2.7/dist-packages/pbalign/tools/__init__.py
/usr/lib/python2.7/dist-packages/pbalign/tools/createChemistryHeader.py
/usr/lib/python2.7/dist-packages/pbalign/tools/extractUnmappedSubreads.py
/usr/lib/python2.7/dist-packages/pbalign/tools/loadChemistry.py
/usr/lib/python2.7/dist-packages/pbalign/tools/mask_aligned_reads.py
/usr/lib/python2.7/dist-packages/pbalign/utils/RgnH5IO.py
/usr/lib/python2.7/dist-packages/pbalign/utils/__init__.py
/usr/lib/python2.7/dist-packages/pbalign/utils/fileutil.py
/usr/lib/python2.7/dist-packages/pbalign/utils/progutil.py
/usr/lib/python2.7/dist-packages/pbalign/utils/tempfileutil.py
/usr/share/doc/python-pbalign/changelog.Debian.gz
/usr/share/doc/python-pbalign/copyright

Changelog

2017-01-15 - Afif Elghraoui <afif@debian.org>
pbalign (0.3.0-1) unstable; urgency=medium
* New upstream release (corresponds to smrtanalysis-4.0.0 tag)
* Readability improvements and clean-ups in d/control and d/rules
* Update email address and copyright year
* Bump Standards-Version to 3.9.8
* Use encrypted protocols for VCS URLs
* Add build-dependency on pbcommand
* Drop patch applied upstream
* Don't install LICENSES file
* Set blasr minimum version
2015-09-07 - Afif Elghraoui <afif@ghraoui.name>
pbalign (0.2.0-1) unstable; urgency=low
* Initial release (Closes: #797675)

See Also

Package Description
python-pbbanana_15.8.24+dfsg-2_all.deb additional utilities for the pbsuite
python-pbcommand_0.5.3-1_all.deb common command-line interface for Pacific Biosciences analysis modules
python-pbconsensuscore_1.0.2-2build2_i386.deb algorithms for PacBio multiple sequence consensus -- Python 2
python-pbcore-doc_1.2.11+dfsg-1ubuntu1_all.deb Python library for processing PacBio data files (documentation)
python-pbcore_1.2.11+dfsg-1ubuntu1_all.deb Python library for processing PacBio data files
python-pbgenomicconsensus_2.1.0-1_all.deb Pacific Biosciences variant and consensus caller (Python 2)
python-pbh5tools-doc_0.8.0+dfsg-5build1_all.deb tools for manipulating HDF5 files produced by Pacific Biosciences (doc)
python-pbkdf2_1.3+20110613.git2a0fb15~ds0-3_all.deb Python RSA PKCS#5 v2.0 module (Python 2)
python-pbsuite-utils_15.8.24+dfsg-2_all.deb software for Pacific Biosciences sequencing data -- Python utilities
python-pcapy_0.10.8-1build1_i386.deb Python interface to the libpcap packet capture library
python-pcl-msgs_0.2.0-6_all.deb Python code for PCL-related Robot OS Messages
python-pcp_4.0.1-1_i386.deb Performance Co-Pilot Python PMAPI module
python-pcs_0.6+debian-0ubuntu3_i386.deb Packet Construction Set for Python
python-pdal_1.6.0+ds-1_i386.deb Point Data Abstraction Library - Python 2 extension
python-pdfkit_0.5.0-1_all.deb Python wrapper for wkhtmltopdf to convert HTML to PDF (Python 2)
Advertisement
Advertisement