MOLB 7950: Informatics and Statistics for Molecular Biology

Iterate over minimizers of a DNA sequence

A comprehensive mapping database, including detailed information, of the terminology and concepts in computational medicine and bioinformatics field.

A basic seed-chain-extend aligner with linear-gap cost chaining and quadratic time extension for experiments

a high-performance computing solution designed to accelerate matrix operations using Nvidia's CUDA technology with Rust's ndarray data structure.

Fast and exact gap-affine partial order alignment

Layout is a rust library and a tool that renders Graphviz dot files.

Master programming by recreating your favorite technologies from scratch.

library implementing interaction with various linear programming solvers

Nanomotif - a tool for identifying methylated motifs in metagenomic samples

Rust libraries and programs focused on succinct data structures

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

🔶 Build beautiful terminal tables with automatic content wrapping

Catalogue of pairwise alignment algorithms and benchmarks

Optimal sequence-to-graph alignment with recombinations

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

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

Random variables for Rust

Statistics and analysis for variation graphs

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

Deep learning at the speed of light.

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

Tumour-only somatic mutation calling using long reads

Rust Scientific Analysis similar to SciPy

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