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asynt

Genome alignment and synteny plots

bcftools

This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib

bioconda-recipes

Conda recipes for the bioconda channel.

college_performance

conjunction

Simulator of secondary CONtact using Fisher's JUNCTION representation of genome admixture.

conjunctionexamples

Examples of simulations using Conjunction and ConjunctionStats for analysis

conjunctionstats

The set of functions written in R created for parsing the output of the forsim.

csks

Coalescent simulations for k-mer spectra

dee_assistants

this repository will serve as a platform for sharing data and documents of among PhD students and post-docs of DEE.

generic_genomics

small scripts, functions or bits of code for parsing genomic data

genomescope

Fast genome analysis from unassembled short reads

genometelescope

genomic-features-of-parthenogenetic-animals

A project for gathering and re-analysing all published asexual genomes

inbreeding_heterozygosity_loss

introgress

kamilsjaron.github.io

kenrichment

koopod

A repository for a GitPod settings for Koorosh

mackintosh_et_al_2022_bino

Scripts, commands, and data associated with Mackintosh et al. 2022.

merqury.fk

FastK based version of Merqury

oh-know

k-mer learning materials

peculiar-genomic-observations

A collection of peculiar observations in genomics

psass

Pooled Sequencing Analysis for Sex Signal

reproductive_mode_te_dynamics

TE dynamics in yeasts with respect to reproduction mode.

rescience.github.io

ReScience website sources

sage_firm5_specific_hgt

sequence-a-genome

Source files of materials for practicals of master class Sequence a genome.

sex-chromosomes-tutorial

shiny-k-mers

An R package and Shiny app for interactively fitting population parameters to k-mer spectra of diploids, triploids, and tetraploids (allo and auto)

sighunt

SigHunt: Tool for horizontal gene transfer detection.