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fbaumdicker's Projects

aimsetfinder icon aimsetfinder

AIMsetfinder is a collection of Rscripts to identify sets of Ancestry Informative Markers (AIMs), that minimize the logloss error of a naive Bayes classifier.

codebook icon codebook

Source for The Good Research Code Handbook

goldfinder icon goldfinder

Goldfinder detects gene co-occurrence and avoidance accounting for phylogenetic relationships

lecture_notes icon lecture_notes

Lecture Notes on Computational and Mathematical Population Genetics

msprime icon msprime

A reimplementation of Hudson's classical ms simulator for modern data sets.

panicmage icon panicmage

panicmage can estimate gene gain and loss rates, the size of pan-genomes, and test for neutral evolution.

spacerplacer icon spacerplacer

ancestral reconstruction and likelihood analysis for CRISPR spacer arrays

stdpopsim icon stdpopsim

A library of standard simulation models for msprime

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