High-performance UMI tools for NGS data analysis

Terminal-based multiple sequence alignment (MSA) viewer designed for remote and HPC bioinformatics workflows.

Filtering of Poison noise on a single-cell RNA-seq UMI count matrix

All code necessary for reconstructing Bonsai-trees on high-dimensional data and visualizing them in Bonsai-scout

A differentiable model of nucleic acid dynamics

Blazing-Fast Bioinformatic Operations on Python DataFrames

Fast and flexiable Hi-C/Micro-C data analyzer

Template repository for HOOMD-blue C++ components.

A command-line tool for reading SAM/BAM files and converted them directly to bigwig files.

A simple command line tool to wrap blender 2.8+ as a jupyter kernel.

This repository hosts a minimal version of a Python API for BPNet.

Processing and plotting tools for genomics data

a minimal, scriptable genome browser for python

Python implementation of Chatterjee's Rank Correlation, its modifications, and other offshoots

The detection of peaks and valleys in a 1d-vector or 2d-array (image)

Code at the speed of thought – Zed is a high-performance, multiplayer code editor from the creators of Atom and Tree-sitter.

A cool place to store your Hi-C

Unix commands for Jupyter notebooks.

A natural language interface for computers

⚡ A Fast, Extensible Progress Bar for Python and CLI

n³ The unorthodox terminal file manager

Genomic interval operations on Pandas DataFrames

pyranges/bioframe for polars

Oxbow makes genomic data ready for high-performance analytics.

Read bigwig into pyranges or dataframe

A markup-based typesetting system that is powerful and easy to learn.