flowsim: Simulate 454 pyrosequencing
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.
Downloads
- flowsim-0.3.5.tar.gz [browse] (Cabal source package)
- Package description (as included in the package)
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| Versions [RSS] | 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 && <5), biocore (>=0.3), biofasta, biosff (>=0.3), bytestring, cmdargs (>=0.5), containers, directory, MonadRandom, mtl (>=2), random [details] |
| Tested with | ghc ==6.8.2, ghc ==6.10, ghc ==6.12.1, ghc ==7.4.1 |
| License | GPL-2.0-only |
| Author | Ketil Malde |
| Maintainer | Ketil Malde <ketil@malde.org> |
| Category | Bioinformatics |
| Home page | http://biohaskell.org/Applications/FlowSim |
| Uploaded | by KetilMalde at 2013-11-19T15:49:01Z |
| Distributions | |
| Reverse Dependencies | 1 direct, 0 indirect [details] |
| Executables | filtersff, gelfilter, duplicator, mutator, kitsim, clonesim, hplc, flowsim |
| Downloads | 5997 total (35 in the last 30 days) |
| Rating | (no votes yet) [estimated by Bayesian average] |
| Your Rating | |
| Status | Docs not available [build log] Last success reported on 2015-05-19 [all 8 reports] |