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cli11

Command line parser for C++11

come_2017

Some sample files for the CoME2017 course to play around with.

dinoflagellate-paper

Code repository for the dinophyte DNA in tropical rain forest soils paper

eseb-birds

flat

Flat containers for C++

gappa

A toolkit for analyzing and visualizing phylogenetic (placement) data

genesis

A library for working with phylogenetic and population genetic data.

genesis-gappa-paper

Scripts and Tests for the Application Note of genesis and gappa

grenedalf

Toolkit for Population Genetic Statistics from Pool-Sequenced Samples, e.g., in Evolve and Resequence experiments

grenedalf-paper

Code for tests and benchmarks of our paper on grenedalf

grenepilot-paper

Scripts and analyses for the GrENE-net pilot dataset

greneselect

Snakemake playground for selection analyses in evolve & resequence experiments

haf-pipe

Calculate haplotype-derived allele frequencies for pool-seq samples

htscodecs

Custom compression for CRAM and others.

language-cpp

C++ support in Atom

lucas-dark-syntax

My syntax scheme for atom.

nidhoggr

Snakemake pipeline to run phylogenetic tree inferences

papara_nt

new codebase of the PaPaRa algorithm

placement-methods-paper

Accompanying code repository with scripts, programs and data for our papers.

pllprac

Programming Practical of the Exelicis Lab using the Phylogenetic Likelihood Library

pool-seq-pop-gen-stats

poolhmm

Pool-HMM mirror with Mac support (versions >= 1.4.3)

popoolation

Forked from https://sourceforge.net/p/popoolation/

popoolation2

Forked from https://sourceforge.net/p/popoolation2/

ratatosk

Snakemake pipeline for phylogenetic placement of metagenomic sequences

snakemake-wrappers

This is the development home of the Snakemake wrapper repository, see

sparsepp

A fast, memory efficient hash map for C++

supertictactoe

swarm

A robust and fast clustering method for amplicon-based studies

thesis

My dissertation / PhD thesis