cth/vcf-misc-tools

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Created about 9 years ago
Updated over 6 years ago

cth/vcf-misc-tools

cth

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Another set of tools working with VCF files.

banpipe

BANpipe is logic-based pipeline programming language

sdcg

Stochastic Definite Clause Grammars

modemserver

A multithreaded modem server that receives SMS messages though sockets via modems connected to a Moxa box.

chmm

Framework for Constraint Hidden Markov Models in PRISM. Includes Pair HMM example.

QsubCmds.jl

Run Julia external (shell) commands on a HPC cluster

approximatize

Approximatize lets you code while drunk ;-)

genome2prolog

Converts genome (fasta) data to prolog facts

treecount

Counts the number of parse trees for a sentence of length n given a possibly ambiguous grammar G in O(n^3 |G|)

inside-outside-chr

Experimental implementation of inside-outside for PCFGs in CHR

prex

A probabilistic regular expression engine

grspwr

power calculator for Genetic Risk Scores (GRS)

mohri-nederhof-approximation

CHR implementation of Mohri/Nederhof transformation of context-free grammars

hmm-regex-transform

wunderbar

Identify mislabeled samples in genotype data

the-lost-framework

The original implementation of banpipe (formerly known as "the lost framework").

hmmlearn

A CHR based traning program for HMMs

simplenn

A simplistic neural network library with support for backpropagation training

lookitup

imputation_scripts

assemble-yourself

cut and paste bioinformatics -- literally

GenetiCHR

GenetiCHR is a simple framework for genetic computing written in Constraint Handling Rules.

genetic-soduku-generator

A small program for generating/solving Soduku's using a genetic algorithm written in Standard ML.