mirror of
https://git.FreeBSD.org/ports.git
synced 2025-01-03 06:04:53 +00:00
18 lines
975 B
Plaintext
18 lines
975 B
Plaintext
|
bx-python 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; optomized 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
|
||
|
|
|
||
|
|
WWW: https://github.com/bxlab/bx-python
|