ArtRand

build-your-own-x

Master programming by recreating your favorite technologies from scratch.

luminal

Deep learning at the speed of light.

applied-computational-genomics

Applied Computational Genomics Course at UU: Spring 2020

comfy-table

:large_orange_diamond: Build beautiful terminal tables with automatic content wrapping

statrs

Statistical computation library for Rust

flash-attention-minimal

Flash Attention in ~100 lines of CUDA (forward pass only)

good_lp

Linear Programming for Rust, with a user-friendly API. This crate allows modeling LP problems, and lets you solve them with various solvers.

flair

Full-Length Alternative Isoform analysis of RNA

herro

HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).

Polypolish

a short-read polishing tool for long-read assemblies

bsuccinct-rs

Rust libraries and programs focused on succinct data structures

coitrees

A very fast interval tree data structure

granges

A Rust library and command line tool for working with genomic ranges and their data.

fasten

:construction_worker: Fasten toolkit, for streaming operations on fastq files

array_record

oarfish

long read RNA-seq quantification

pairwise-alignment

Catalogue of pairwise alignment algorithms and benchmarks

gretl

Statistics and analysis for variation graphs

RecGraph

Optimal sequence-to-graph alignment with recombinations

smrest

Tumour-only somatic mutation calling using long reads

Wakhan

Haplotype-specific somatic copy number aberrations/profiling from long reads sequencing data

nanomotif

Nanomotif - a tool for identifying methylated motifs in metagenomic samples

lp-solvers

library implementing interaction with various linear programming solvers

sci-rs

Rust Scientific Analysis similar to SciPy

wavefront-aln

A "Navie" Implementation of the Wavefront Algorithm For Sequence Alignment with Gap-Affine Scoring

hyperminhash

rv

Random variables for Rust

graphembed

graph embedding, density friendly decomposition

hdbscan

hdphmm

A Bayesian classifier for detecting and parameterizing an unknown number of latent states.