python-bx_0.8.2-1_amd64.deb


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Description

python-bx - library to manage genomic data and its aligment

Property Value
Distribution Ubuntu 19.04 (Disco Dingo)
Repository Ubuntu Universe amd64
Package filename python-bx_0.8.2-1_amd64.deb
Package name python-bx
Package version 0.8.2
Package release 1
Package architecture amd64
Package type deb
Category universe/python
Homepage https://github.com/bxlab/bx-python
License -
Maintainer Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>
Download size 639.43 KB
Installed size 2.88 MB
The bx-python project is a python library and associated set of scripts to
allow for rapid implementation of genome scale analyses. The library contains
a variety of useful modules, but the particular strengths are:
* Classes for reading and working with genome-scale multiple local
alignments (in MAF, AXT, and LAV formats)
* Generic data structure for indexing on disk files that contain blocks of
data associated with intervals on various sequences (used, for example, to
provide random access to individual alignments in huge files; optimized for
use over network filesystems)
* Data structures for working with intervals on sequences
* "Binned bitsets" which act just like chromosome sized bit arrays, but
lazily allocate regions and allow large blocks of all set or all unset bits
to be stored compactly
* "Intersecter" for performing fast intersection tests that preserve both
query and target intervals and associated annotation
This package provides the Python 2 library.

Alternatives

Package Version Architecture Repository
python-bx_0.8.2-1_i386.deb 0.8.2 i386 Ubuntu Universe
python-bx - - -

Requires

Name Value
libc6 >= 2.14
python >= 2.7~
python << 2.8
python-numpy -
python-six -
python:any >= 2.7~
python:any << 2.8
zlib1g >= 1:1.1.4

Download

Type URL
Mirror archive.ubuntu.com
Binary Package python-bx_0.8.2-1_amd64.deb
Source Package python-bx

Install Howto

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

Files

Path
/usr/lib/python2.7/dist-packages/psyco_full.py
/usr/lib/python2.7/dist-packages/bx/__init__.py
/usr/lib/python2.7/dist-packages/bx/_seqmapping.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/binned_array.py
/usr/lib/python2.7/dist-packages/bx/binned_array_tests.py
/usr/lib/python2.7/dist-packages/bx/bitset.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/bitset_builders.py
/usr/lib/python2.7/dist-packages/bx/bitset_tests.py
/usr/lib/python2.7/dist-packages/bx/bitset_utils.py
/usr/lib/python2.7/dist-packages/bx/filter.py
/usr/lib/python2.7/dist-packages/bx/gene_reader.py
/usr/lib/python2.7/dist-packages/bx/interval_index_file.py
/usr/lib/python2.7/dist-packages/bx/interval_index_file_tests.py
/usr/lib/python2.7/dist-packages/bx/seqmapping.py
/usr/lib/python2.7/dist-packages/bx/seqmapping_tests.py
/usr/lib/python2.7/dist-packages/bx/wiggle.py
/usr/lib/python2.7/dist-packages/bx/wiggle_tests.py
/usr/lib/python2.7/dist-packages/bx/align/__init__.py
/usr/lib/python2.7/dist-packages/bx/align/_core.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/align/_epo.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/align/axt.py
/usr/lib/python2.7/dist-packages/bx/align/core.py
/usr/lib/python2.7/dist-packages/bx/align/epo.py
/usr/lib/python2.7/dist-packages/bx/align/epo_tests.py
/usr/lib/python2.7/dist-packages/bx/align/lav.py
/usr/lib/python2.7/dist-packages/bx/align/lav_tests.py
/usr/lib/python2.7/dist-packages/bx/align/maf.py
/usr/lib/python2.7/dist-packages/bx/align/maf_tests.py
/usr/lib/python2.7/dist-packages/bx/align/score.py
/usr/lib/python2.7/dist-packages/bx/align/score_tests.py
/usr/lib/python2.7/dist-packages/bx/align/sitemask/__init__.py
/usr/lib/python2.7/dist-packages/bx/align/sitemask/_cpg.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/align/sitemask/core.py
/usr/lib/python2.7/dist-packages/bx/align/sitemask/cpg.py
/usr/lib/python2.7/dist-packages/bx/align/sitemask/quality.py
/usr/lib/python2.7/dist-packages/bx/align/sitemask/sitemask_tests.py
/usr/lib/python2.7/dist-packages/bx/align/tools/__init__.py
/usr/lib/python2.7/dist-packages/bx/align/tools/chop.py
/usr/lib/python2.7/dist-packages/bx/align/tools/fuse.py
/usr/lib/python2.7/dist-packages/bx/align/tools/thread.py
/usr/lib/python2.7/dist-packages/bx/align/tools/tile.py
/usr/lib/python2.7/dist-packages/bx/arrays/__init__.py
/usr/lib/python2.7/dist-packages/bx/arrays/array_tree.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/arrays/array_tree_tests.py
/usr/lib/python2.7/dist-packages/bx/arrays/bed.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/arrays/wiggle.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/bbi/__init__.py
/usr/lib/python2.7/dist-packages/bx/bbi/bbi_file.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/bbi/bigbed_file.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/bbi/bigwig_file.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/bbi/bigwig_tests.py
/usr/lib/python2.7/dist-packages/bx/bbi/bpt_file.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/bbi/cirtree_file.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/cookbook/__init__.py
/usr/lib/python2.7/dist-packages/bx/cookbook/argparse.py
/usr/lib/python2.7/dist-packages/bx/cookbook/attribute.py
/usr/lib/python2.7/dist-packages/bx/cookbook/doc_optparse.py
/usr/lib/python2.7/dist-packages/bx/cookbook/progress_bar.py
/usr/lib/python2.7/dist-packages/bx/intervals/__init__.py
/usr/lib/python2.7/dist-packages/bx/intervals/cluster.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/intervals/cluster_tests.py
/usr/lib/python2.7/dist-packages/bx/intervals/intersection.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/intervals/intersection_tests.py
/usr/lib/python2.7/dist-packages/bx/intervals/io.py
/usr/lib/python2.7/dist-packages/bx/intervals/random_intervals.py
/usr/lib/python2.7/dist-packages/bx/intervals/operations/__init__.py
/usr/lib/python2.7/dist-packages/bx/intervals/operations/base_coverage.py
/usr/lib/python2.7/dist-packages/bx/intervals/operations/complement.py
/usr/lib/python2.7/dist-packages/bx/intervals/operations/concat.py
/usr/lib/python2.7/dist-packages/bx/intervals/operations/coverage.py
/usr/lib/python2.7/dist-packages/bx/intervals/operations/find_clusters.py
/usr/lib/python2.7/dist-packages/bx/intervals/operations/intersect.py
/usr/lib/python2.7/dist-packages/bx/intervals/operations/join.py
/usr/lib/python2.7/dist-packages/bx/intervals/operations/merge.py
/usr/lib/python2.7/dist-packages/bx/intervals/operations/quicksect.py
/usr/lib/python2.7/dist-packages/bx/intervals/operations/subtract.py
/usr/lib/python2.7/dist-packages/bx/intseq/__init__.py
/usr/lib/python2.7/dist-packages/bx/intseq/ngramcount.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/misc/__init__.py
/usr/lib/python2.7/dist-packages/bx/misc/_seekbzip2.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/misc/bgzf.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/misc/bgzf_tests.py
/usr/lib/python2.7/dist-packages/bx/misc/binary_file.py
/usr/lib/python2.7/dist-packages/bx/misc/cdb.py
/usr/lib/python2.7/dist-packages/bx/misc/cdb_tests.py
/usr/lib/python2.7/dist-packages/bx/misc/filecache.py
/usr/lib/python2.7/dist-packages/bx/misc/filecache_tests.py
/usr/lib/python2.7/dist-packages/bx/misc/readlengths.py
/usr/lib/python2.7/dist-packages/bx/misc/seekbzip2.py
/usr/lib/python2.7/dist-packages/bx/misc/seekbzip2_tests.py
/usr/lib/python2.7/dist-packages/bx/misc/seeklzop.py
/usr/lib/python2.7/dist-packages/bx/misc/seeklzop_tests.py
/usr/lib/python2.7/dist-packages/bx/motif/__init__.py
/usr/lib/python2.7/dist-packages/bx/motif/_pwm.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/motif/pwm.py
/usr/lib/python2.7/dist-packages/bx/motif/pwm_tests.py
/usr/lib/python2.7/dist-packages/bx/motif/io/__init__.py
/usr/lib/python2.7/dist-packages/bx/motif/io/transfac.py
/usr/lib/python2.7/dist-packages/bx/motif/io/transfac_tests.py
/usr/lib/python2.7/dist-packages/bx/motif/logo/__init__.py
/usr/lib/python2.7/dist-packages/bx/motif/logo/template.ps
/usr/lib/python2.7/dist-packages/bx/phylo/__init__.py
/usr/lib/python2.7/dist-packages/bx/phylo/newick.py
/usr/lib/python2.7/dist-packages/bx/phylo/newick_tests.py
/usr/lib/python2.7/dist-packages/bx/phylo/phast.py
/usr/lib/python2.7/dist-packages/bx/phylo/phast_tests.py
/usr/lib/python2.7/dist-packages/bx/pwm/__init__.py
/usr/lib/python2.7/dist-packages/bx/pwm/_position_weight_matrix.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/pwm/bed_score_aligned_pwm.py
/usr/lib/python2.7/dist-packages/bx/pwm/bed_score_aligned_string.py
/usr/lib/python2.7/dist-packages/bx/pwm/maf_select_motifs.py
/usr/lib/python2.7/dist-packages/bx/pwm/position_weight_matrix.py
/usr/lib/python2.7/dist-packages/bx/pwm/pwm_score_maf.py
/usr/lib/python2.7/dist-packages/bx/pwm/pwm_score_motifs.py
/usr/lib/python2.7/dist-packages/bx/pwm/pwm_score_positions.py
/usr/lib/python2.7/dist-packages/bx/pwm/pwm_tests.py
/usr/lib/python2.7/dist-packages/bx/seq/__init__.py
/usr/lib/python2.7/dist-packages/bx/seq/_nib.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/seq/_twobit.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/bx/seq/core.py
/usr/lib/python2.7/dist-packages/bx/seq/fasta.py
/usr/lib/python2.7/dist-packages/bx/seq/fasta_tests.py
/usr/lib/python2.7/dist-packages/bx/seq/nib.py
/usr/lib/python2.7/dist-packages/bx/seq/nib_tests.py
/usr/lib/python2.7/dist-packages/bx/seq/qdna.py
/usr/lib/python2.7/dist-packages/bx/seq/qdna_tests.py
/usr/lib/python2.7/dist-packages/bx/seq/seq.py
/usr/lib/python2.7/dist-packages/bx/seq/seq_tests.py
/usr/lib/python2.7/dist-packages/bx/seq/twobit.py
/usr/lib/python2.7/dist-packages/bx/seq/twobit_tests.py
/usr/lib/python2.7/dist-packages/bx/tabular/__init__.py
/usr/lib/python2.7/dist-packages/bx/tabular/io.py
/usr/lib/python2.7/dist-packages/bx_extras/__init__.py
/usr/lib/python2.7/dist-packages/bx_extras/fpconst.py
/usr/lib/python2.7/dist-packages/bx_extras/fpconst_tests.py
/usr/lib/python2.7/dist-packages/bx_extras/lrucache.py
/usr/lib/python2.7/dist-packages/bx_extras/pstat.py
/usr/lib/python2.7/dist-packages/bx_extras/pyparsing.py
/usr/lib/python2.7/dist-packages/bx_extras/stats.py
/usr/lib/python2.7/dist-packages/bx_python-0.8.2.egg-info/PKG-INFO
/usr/lib/python2.7/dist-packages/bx_python-0.8.2.egg-info/dependency_links.txt
/usr/lib/python2.7/dist-packages/bx_python-0.8.2.egg-info/not-zip-safe
/usr/lib/python2.7/dist-packages/bx_python-0.8.2.egg-info/requires.txt
/usr/lib/python2.7/dist-packages/bx_python-0.8.2.egg-info/top_level.txt
/usr/share/doc/python-bx/README.Debian
/usr/share/doc/python-bx/changelog.Debian.gz
/usr/share/doc/python-bx/copyright

Changelog

2018-10-17 - Steffen Moeller <moeller@debian.org>
python-bx (0.8.2-1) unstable; urgency=low
* New upstream version.
* Policy compliance with 4.2.1.
2018-06-12 - Steffen Moeller <moeller@debian.org>
python-bx (0.8.1-2) unstable; urgency=low
* Initial release (Closes: #851242)
* Lintian-overrides for .py suffix for executables
* Reformatting of debian/{README.Debian,copyright}
2018-06-11 - Steffen Moeller <moeller@debian.org>
python-bx (0.8.1-1) UNRELEASED; urgency=low
* New upstream version.
* Policy compliance with 4.1.4.
2017-01-13 - Steffen Moeller <moeller@debian.org>
python-bx (0.7.4-1) UNRELEASED; urgency=low
* Added Michael and Steffen as uploaders
* Removing generated files from source tree in debian/copyright
* Added -tools packages to separate command line interface
from parallel-installable Python 2 and Python 3 modules.
2016-01-14 - Afif Elghraoui <afif@debian.org>
python-bx (0.7.2+20150623-1) UNRELEASED; urgency=low
* Initial packaging.
* debian/watch added by Steffen

See Also

Package Description
python-bz2file_0.98-2_all.deb Python library for reading and writing bzip2-compressed files
python-bzrlib.tests_2.7.0+bzr6622-15_all.deb distributed version control system - testsuite
python-bzrlib_2.7.0+bzr6622-15_amd64.deb distributed version control system - python library
python-cachecontrol_0.11.7-1_all.deb caching algorithms in httplib2 for use with requests
python-cached-property_1.5.1-2_all.deb Provides cached-property for decorating methods in classes (Python 2)
python-cachetools_3.1.0-2_all.deb extensible memoizing collections and decorators for Python
python-cairo-dev_1.16.2-1build2_all.deb Python cairo bindings: development files
python-cairo_1.16.2-1build2_amd64.deb Python bindings for the Cairo vector graphics library
python-cairocffi-doc_0.8.0-0ubuntu2_all.deb cffi-based cairo bindings for Python - Documentation
python-cairocffi_0.8.0-0ubuntu2_all.deb cffi-based cairo bindings for Python
python-cairosvg_1.0.20-1_all.deb SVG to PDF/PS/PNG converter based on Cairo
python-caja-common_1.20.2-1_all.deb Python binding for Caja components (common files)
python-caja_1.20.2-1_amd64.deb Python binding for Caja components
python-calabash_0.0.3-3_all.deb Bash-style pipelining syntax for Python generators
python-caldav_0.5.0-0.1_all.deb CalDAV (RFC4791) client library for Python 2
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