Centre for Computational Inference in Evolutionary Life Science 's Projects
A small set of utility functions for using the UCSC mysql database and sequence API, focused around getting data relevant for graph-based genomes.
Online material and code base for the article Coordinates and Intervals in Graph Based Reference Genomes
Repository for Nilsson et al.: The genome of the great gerbil reveals species-specific duplication of an MHCII gene
In-depth characterization and annotation of differences between two sets of DNA sequences
Python package for handling genomic offset-based graphs
Pipeline for detecting repetetive elements in genomes.
Data related to Solbakken et al 2019, infection and vaccination of Atlantic cod
Repository for Solbakken et al: Evolutionary redesign of the Atlantic cod (Gadus morhua L.) Toll-like receptor repertoire by gene losses and expansions (Scientific reports)
Repo for "Genomic repeat landscape evolution across the teleost fish lineages" (Reinar et al. 2019)
tools for working with variation graphs