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fastahack

utility for indexing and sequence extraction from FASTA files

Description

fastahack is a small application for indexing and extracting sequences and subsequences from FASTA files. The included Fasta.cpp library provides a FASTA reader and indexer that can be embedded into applications which would benefit from directly reading subsequences from FASTA files. The library automatically handles index file generation and use.

Features:
 * FASTA index (.fai) generation for FASTA files
 * Sequence extraction
 * Subsequence extraction
 * Sequence statistics (currently only entropy is provided)

Sequence and subsequence extraction use fseek64 to provide fastest-possible extraction without RAM-intensive file loading operations. This makes fastahack a useful tool for bioinformaticists who need to quickly extract many subsequences from a reference FASTA sequence.

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Homepage

https://github.com/ekg/fastahack


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717 other people were interested in this package here. The newest known version of this software is 0.0+git20160702.bbc645f+dfsg-5 (Information last updated 1 day ago.)