The flowsim package

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

Provides clonesim, a clone simulator that simulates shotgun genomic clones, and flowsim, that takes the output from clonesim (or any other Fasta-formatted file) and generates simulated reads from them mimicing Roche's 454 pyrosequencing technology, writing output in 454's native SFF format. The flowgram generation is based on empirical distributions derived from real data (although analytic distributions are available too, if you prefer).

The Darcs repository is at http://malde.org/~ketil/biohaskell/flowsim.

Properties

Versions 0.2.6, 0.2.7, 0.2.8, 0.3, 0.3.3, 0.3.4, 0.3.5
Dependencies array (>=0.1), base (==4.*), biocore (>=0.3), biofasta, biosff (>=0.3), bytestring, cmdargs (>=0.5), containers, directory, MonadRandom, mtl (>=2), random [details]
License GPL-2
Author Ketil Malde
Maintainer Ketil Malde <ketil@malde.org>
Category Bioinformatics
Home page http://biohaskell.org/Applications/FlowSim
Uploaded Tue Nov 19 15:49:01 UTC 2013 by KetilMalde
Distributions NixOS:0.3.5
Executables filtersff, gelfilter, duplicator, mutator, kitsim, clonesim, hplc, flowsim
Downloads 1876 total (10 in the last 30 days)
Rating 0.0 (0 ratings) [clear rating]
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Status Docs not available [build log]
Last success reported on 2015-05-19 [all 8 reports]
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