Plotting scripts for long read sequencing data

process any file in tabular format. Fasta/fastq/GTF/GFF/VCF/SAM/BED

Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/

A cat(1) clone with wings.

This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.

The Git interface you've been missing all your life has finally arrived.

Implement a ChatGPT-like LLM in PyTorch from scratch, step by step

The rendered book can be found at https://liulab-dfci.github.io/bioinfo-combio/

An advanced SAT solver

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

Make Zotero effective for us LaTeX holdouts

The C++ Core Guidelines are a set of tried-and-true guidelines, rules, and best practices about coding in C++

Bioinformatics I/O libraries in Rust

Check strandedness of RNA-Seq fastq files

Nanopore sequence read simulator

Collections of library structure and sequence of popular single cell genomic methods

Ariadne, a de Bruijn graph-based program for barcoded read deconvolution

Network Analysis in Python

Efficient genotyping bi-allelic SNPs on single cells

Single-Cell Genotyping Tool

the pangenome graph builder

Analyze your RNA sequencing data without writing a single line of code

genes and genomes at your fingertips

A tool to find sequencing data and metadata from public databases.

The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants

Incubator for useful bioinformatics code, primarily in Python and R