The flowsim package

[Tags: gpl, program]

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

Versions0.2.6, 0.2.7, 0.2.8, 0.3, 0.3.3, 0.3.4, 0.3.5
Dependenciesarray (>=0.1), base (==4.*), bio (>=0.4.4), bytestring, cmdargs (>=0.5), containers, directory, MonadRandom, random
LicenseGPL
AuthorKetil Malde
MaintainerKetil Malde <ketil@malde.org>
CategoryBioinformatics
Home pagehttp://blog.malde.org/index.php/flowsim/
Executablesclonesim, hplc, flowsim
Upload dateTue Dec 14 12:34:05 UTC 2010
Uploaded byKetilMalde
Downloads645 total (55 in last 30 days)

Downloads

Maintainers' corner

For package maintainers and hackage trustees