The hPDB package

[Tags: bsd3, library]

Protein Data Bank file format is a most popular format for holding biological macromolecular data.

This is a very fast sequential parser:

In its parallel incarnation it is most probably the fastest parser for PDB format.

It is aimed to not only deliver event-based interface, but also a high-level data structure for manipulating data in spirit of BioPython's PDB parser.

hPDB - Haskell library for processing atomic biomolecular structures in Protein Data Bank format - Michal Jan Gajda. BMC Research Notes 2013, 6:483.


Versions0.99, 0.999, 0.9999, 0.9999.1, 1.0, 1.1, 1.1.1, 1.1.2, 1.2.0
DependenciesAC-Vector, base (>=4.0 && <4.8), bytestring, containers, deepseq, directory, ghc-prim, iterable (>=3.0), mtl, Octree (>=0.5), parallel (>=, QuickCheck (>=, tagged (>=0.7), template-haskell, text (>=, vector, zlib
CopyrightCopyright by Michal J. Gajda '2009-'2013
AuthorMichal J. Gajda
Home page
Source repositoryhead: git clone
Upload dateMon May 19 20:17:33 UTC 2014
Uploaded byMichalGajda
Downloads722 total (39 in last 30 days)




have-mmapUse mmap to read input faster.Enabled
have-sse2Use -msse2 for faster code.Enabled
have-text-formatDo not use text-format, since it may require double-conversion and thus linking of libstdc++ which may break compilation due to GHC bug #5289:

Use -f <flag> to enable a flag, or -f -<flag> to disable that flag. More info


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