Implementation of Positional Burrows-Wheeler Transform for genetic data

Accelerated BLAST compatible local sequence aligner.

An extension of NumPyro for first-class support of dynamical systems.

R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics

Single Rust: Pioneering single-cell analysis with Rust's concurrency for scalable, high-throughput pipelines. 🧬🚀

MAS-Iso-Seq Isoform Identification and Quantification

Piecewise alignment for layers of mosaics

Pairwise whole genome aligner

Piecewise alignment for layers of mosaics

VACmap: a long-read aligner specifically designed for complex structural variation discovery

Differentiable SDE solvers with GPU support and efficient sensitivity analysis.

an API for intersections of genomic data

Extension of dynamax repository to dynamical systems with continuous-time dynamics and measurements sampled at possibly irregular discrete times. Allows generic inference of dynamical systems param…

This repo is for backup only. Please check the parent repo for details.

This repo is for backup only. Please check the parent repo for details.

This is the github repo to benchmark long read SV tools

Genotyping of copy number sensitive allele-specific haplotypes

EasyFigAssembler simplifies the assembly of publication-quality scientific figures. It helps free scientists from technical burdens, so we can focus more on science.

a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

A list of software for pangenomics

LexicMap: efficient sequence alignment against millions of prokaryotic genomes

Identify long STRs, VNTRs, satellite DNA and other low-complexity regions in a genome

MMseqs2: ultra fast and sensitive search and clustering suite

Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)

Image processing in Python

Palettes for R based on the Scientific Colour-Maps

ProbMinHash – A Class of Locality-Sensitive Hash Algorithms for the (Probability) Jaccard Similarity

Centromere sequence analysis using rare k-mer markers