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Control/Monad
Control/Monad
 
 
SearchStrategies
SearchStrategies
 
 
data
data
 
 
otherdocs
otherdocs
 
 
scripts
scripts
 
 
testing
testing
 
 
.gitignore
.gitignore
 
 
BENCH
BENCH
 
 
Beta.hs
Beta.hs
 
 
BetaProps.hs
BetaProps.hs
 
 
CommandArgs.hs
CommandArgs.hs
 
 
Constants.hs
Constants.hs
 
 
ConstantsGen.hs
ConstantsGen.hs
 
 
DEPENDENCIES
DEPENDENCIES
 
 
DevNotes.txt
DevNotes.txt
 
 
Fasta.hs
Fasta.hs
 
 
FileOps.hs
FileOps.hs
 
 
HMMArby.hs
HMMArby.hs
 
 
HMMPlus.hs
HMMPlus.hs
 
 
HMMProps.hs
HMMProps.hs
 
 
HyperTriangles.hs
HyperTriangles.hs
 
 
LazySearchModel.hs
LazySearchModel.hs
 
 
MRFTypes.hs
MRFTypes.hs
 
 
Main.hs
Main.hs
 
 
NonUniform.hs
NonUniform.hs
 
 
ParRandom.hs
ParRandom.hs
 
 
ParsecHelper.hs
ParsecHelper.hs
 
 
Perturb.hs
Perturb.hs
 
 
PrefixMemo.hs
PrefixMemo.hs
 
 
PsiPred.hs
PsiPred.hs
 
 
README
README
 
 
RunPsiPred.hs
RunPsiPred.hs
 
 
Score.hs
Score.hs
 
 
SearchStrategy.hs
SearchStrategy.hs
 
 
Setup.hs
Setup.hs
 
 
ShowAlignment.hs
ShowAlignment.hs
 
 
Shuffle.hs
Shuffle.hs
 
 
StochasticSearch.hs
StochasticSearch.hs
 
 
TODO
TODO
 
 
V2.hs
V2.hs
 
 
Viterbi.hs
Viterbi.hs
 
 
Wrappers.hs
Wrappers.hs
 
 
ghc-opts
ghc-opts
 
 
mkfile
mkfile
 
 
mrfy.cabal
mrfy.cabal
 
 
notes.txt
notes.txt
 
 
session.vim
session.vim
 
 
sources.txt
sources.txt
 
 
test.hmm+
test.hmm+
 
 
test.ss2
test.ss2
 
 

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This is a Haskell implementation of the SMURF2 algorithm (stochastic search-based).

Docs for cmdargs (which is very nice):
  http://hackage.haskell.org/packages/archive/cmdargs/latest/doc/html/System-Console-CmdArgs-Implicit.html

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Structural Motifs Using Random Fields, stochastic search implementation in Haskell

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