python3-bx

library to manage genomic data and its alignment

Description

The bx-python project is a Python3 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

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Homepage

https://github.com/bxlab/bx-python


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