gmx_MMPBSA is a new tool based on AMBER's MMPBSA.py aiming to perform end-state free energy calculations with GROMACS files.

repo for DynamicBind: Predicting ligand-specific protein-ligand complex structure with a deep equivariant generative model

HiC uniform processing pipeline

Method used in the study on germline mutation rate estimation in 68 species of vertebrates.

Disorder protein genomic binding analysis toolkit designed for DisP-seq

RF-Score-VS - Random forest based protein-ligand scoring function for Virtual Screening

Implementation of DiffDock: Diffusion Steps, Twists, and Turns for Molecular Docking

Tutorial on the basics of Git

Interfacing RDKit and AutoDock

RepSeq sample preparation protocols

Bioinformatics code libraries and scripts

Code used in the paper: Single Cell Analysis Identifies Conserved Features of Immune Dysfunction in Simulated Microgravity and Spaceflight

Python library to handle Gene Ontology (GO) terms

[ECCV 2024] Official PyTorch implementation code for realizing the technical part of Mixture of All Intelligence (MoAI) to improve performance of numerous zero-shot vision language tasks.

Python Implementation of Codon Adaption Index

Sends alerts to a Slack channel for potentially interesting new articles selected from RSS feeds.

Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.

A curated list of bioinformatics bench-marking papers and resources.

A Zotero plugin for syncing items and notes into Notion

Implementation of Nougat Neural Optical Understanding for Academic Documents

My personal Obsidian vault template. A bottom-up approach to note-taking and organizing things I am interested in.

🏆 A ranked list of awesome Jupyter Notebook, Hub and Lab projects (extensions, kernels, tools). Updated weekly.

CSS Layout hack for Obsidian.md

A repository containing templates and scripts for #Obsidian to support the #Zettelkasten method for note-taking.

2.4" 2.8"3.2" 3.5" 5.0" 7.0" TFT LCD driver for the Raspberry PI 3B+/A/A+/B/B+/PI2/ PI3/ZERO/ZERO W

A Python library to visualize and analyze long-read transcriptomes

A Comet-based, best practices proteomics pipeline.