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Andrei Salomatov's Projects

de-novo-classifier icon de-novo-classifier

Machine learning approach to identifying de novo mutations (SNP and INDEL) in familial cohorts.

iddispenser icon iddispenser

Randomly generate a numeric ID between 10000 and 99999 while checking it has not been used.

ml icon ml

ML related utilities and exploration

peddf icon peddf

pedigree file representation

pipeline icon pipeline

validated, scalable, minimalist variant detection pipeline

pybedtools icon pybedtools

Python wrapper -- and more -- for Aaron Quinlan's BEDTools (bioinformatics tools)

pyvcf icon pyvcf

A Variant Call Format reader for Python.

remap2b38 icon remap2b38

Remap a bam file to a given reference, and call variants with a choice of GATK HaplotypeCaller, Freebayes, Platypus.

utlts icon utlts

utility functions for various projects

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