vcfdist: Accurately benchmarking phased variant calls

gpx-py is a python GPX parser. GPX (GPS eXchange Format) is an XML based file format for GPS tracks.

An extremely fast Python package and project manager, written in Rust.

pythonic wrapper for htslib

Tabix reader written 100% in Python

Tools and Data related to Enzymatic Methylation Sequencing

Phenotype driven gene prioritization for HPO

Positron, a next-generation data science IDE

Tool for plotting sequencing data along genomic coordinates.

Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)

python Circos

An interactive data visualization tool which brings matplotlib graphics to the browser using D3.

Pangenome-based genome inference

Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

An open access book on scientific visualization using python and matplotlib

an admixture analysis tool for Python that supports raw data from 23andme, AncestryDNA, etc.

Python for Bioinformatics

bioinformatics toolkit in rust

🧬 Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human Genomics

a pure Python multi-version tolerant, runtime and OS-agnostic Binary Alignment Map (BAM) file parser and random access tool

Very simple, pure python, BAM file reader

Dataframes powered by a multithreaded, vectorized query engine, written in Rust

Plot Linkage Disequilibrium

A Python package for exploring and analysing genetic variation data

Python library to parse file formats related to Illumina bead arrays

GCP Variant Transforms

NEAT (NExt-generation Analysis Toolkit) simulates next-gen sequencing reads and can learn simulation parameters from real data.

create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks