This repository contains implementations and illustrative code to accompany DeepMind publications

Handout for the tutorial "Creating publication-quality figures with matplotlib"

Making Protein folding accessible to all!

A library for creating complex UpSet plots with ggplot2 geoms

Introduction to Computational Biology and Bioinformatics Course at Caltech, 2023

a toolkit for working with Oxford nanopore data

Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction

genotype :: ped correspondence check, ancestry check, sex check. directly, quickly on VCF

SIMD-accelerated library for computing global and X-drop affine gap penalty sequence-to-sequence or sequence-to-profile alignments using an adaptive block-based algorithm.

Defense Against the Dark Arts

Genome scaffolding based on HiC data in heterozygous and high ploidy genomes

A simple neural network for calling het-/hom-variants from alignments of single molecule reads to a reference

GFA insert into GenomicSQLite

Transformer-based sequence correction method for genome assembly polishing

Experimental pipeline for correcting nanopore reads

Benchmarking pairwise aligners

Plot multiple sequence alignment (MSA)

Repo for Mincall - MinION basecaller we're working on during academic year 2016/2017.

Fractionation bias analysis tool for investigating whole genome duplication gene loss.

A comprehensive annotation of transposable elements in potato genome