Name: flowsim Version: 0.3.5 License: GPL-2 License-file: COPYING Cabal-Version: >= 1.6 Author: Ketil Malde Maintainer: Ketil Malde Category: Bioinformatics Synopsis: Simulate 454 pyrosequencing Description: 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 . HomePage: http://biohaskell.org/Applications/FlowSim Build-Type: Simple Tested-with: GHC==6.8.2, GHC==6.10, GHC==6.12.1, GHC==7.4.1 -- Data-files: README Executable flowsim Main-Is: FlowSim.hs Other-Modules: Statistics, Config, EmpFile Generations.GenBase, Generations.GS20, Generations.Titanium, Generations.Empirical, Version Build-Depends: base >= 4 && < 5, array >= 0.1, random, MonadRandom, cmdargs >= 0.5, containers, bytestring, directory, mtl >= 2, biofasta, biocore >= 0.3, biosff >= 0.3 Ghc-Options: -Wall Hs-Source-Dirs: src Executable hplc Build-Depends: base >= 4 && < 5, containers, bytestring Main-Is: HPLCount.hs Ghc-Options: -main-is HPLCount Hs-Source-Dirs: src Executable clonesim Main-Is: CloneSim.hs Build-Depends: base >= 4 && < 5, array >= 0.1, cmdargs >= 0.5, bytestring, MonadRandom Other-Modules: Statistics, Version Extensions: DeriveDataTypeable Ghc-Options: -Wall Hs-Source-Dirs: src Executable kitsim Main-Is: KitSim.hs Build-Depends: base >= 4 && < 5, cmdargs >= 0.5 Other-Modules: Version Extensions: DeriveDataTypeable Ghc-Options: -Wall -main-is KitSim Hs-Source-Dirs: src Executable mutator Main-Is: Mutator.hs Build-Depends: base >= 4 && < 5, cmdargs >= 0.5 Other-Modules: Version, Statistics Extensions: DeriveDataTypeable Ghc-Options: -Wall -main-is Mutator Hs-Source-Dirs: src Executable duplicator Main-Is: Duplicator.hs Build-Depends: base >= 4 && < 5 Other-Modules: Statistics Ghc-Options: -Wall -main-is Duplicator Hs-Source-Dirs: src Executable gelfilter Main-Is: GelFilter.hs Build-Depends: base >= 4 && < 5 Ghc-Options: -Wall -main-is GelFilter Hs-Source-Dirs: src Executable filtersff Main-Is: FilterSFF.hs Build-Depends: base >= 4 && < 5 Ghc-Options: -Wall -main-is FilterSFF Hs-Source-Dirs: src