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Efficient "pythonic" access to FASTA files using pyfaidx

Published • Apr 8, 2015
Authors:
Matthew D Shirley
,
Zhaorong Ma
,
Brent S Pedersen

Abstract

The pyfaidx Python module provides memory and time-efficient indexing, subsetting, and in-place modification of subsequences of FASTA files. pyfaidx provides Python classes that expose a dictionary interface where sequences from an indexed FASTA can be accessed by their header name and then sliced b...

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