BiobaseFasta: conduit-based FASTA parser

[ bioinformatics, gpl, library, program ] [ Propose Tags ]

Conduit-based handling of FASTA files. This library provides a streaming interface. The user selects a window size, then handles the window. For each window, the previous (past) window is available, in case some data sits on the boundary between windows.

FastaTool is a simple tool providing information on FASTA files, and allowing to extract sequences and subsequences.

The library is, in general, in a "preview" state. In cases where you need to scan large FASTA files fast and with low memory overhead, the streamFasta function, however, should already be useable enough.

Change log changelog
Dependencies base (>3 && <5), biocore (>=0.2), bytestring, cmdargs (==0.10.*), conduit (==0.5.*), containers, transformers [details]
License GPL-3.0-only
Copyright Christian Hoener zu Siederdissen, 2011-2013
Author Christian Hoener zu Siederdissen
Category Bioinformatics
Home page
Source repo head: git clone git://
Uploaded by ChristianHoener at Fri Dec 6 21:54:37 UTC 2013
Distributions NixOS:
Executables FastaTool
Downloads 2687 total (22 in the last 30 days)
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Status Docs available [build log]
Successful builds reported [all 1 reports]
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