halanzi

halanzi's Stars

• EvanKomp/aide_predict

  A toolset and pipeline for running zero shot and supervised protein fitness prediction, drop in compatible with scikitlearn

  Language:Jupyter Notebook102

• medema-group/bigslice

  A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data

  Language:Python7639

• haddocking/pdb-tools

  A dependency-free cross-platform swiss army knife for PDB files.

  Language:Python393114

• biopragmatics/biomappings

  🗺️ Community curated and predicted equivalences and related mappings between named biological entities that are not available from primary sources.

  Language:Jupyter Notebook5113

• labstructbioinf/localpdb

  Python package to manage protein structures and their annotations

  Language:Python415

• duckdb/duckdb

  DuckDB is an analytical in-process SQL database management system

  Language:C++25.5k2k

• dask/dask

  Parallel computing with task scheduling

  Language:Python12.8k1.7k

• torognes/vsearch

  Versatile open-source tool for microbiome analysis

  Language:C++685124

• zaneveld/full_spectrum_bioinformatics

  An open-access bioinformatics text

  Language:Jupyter Notebook9630

• blobtoolkit/blobtoolkit

  Interactive quality assessment of genome assemblies

  Language:JavaScript9012

• sourmash-bio/sourmash

  Quickly search, compare, and analyze genomic and metagenomic data sets.

  Language:Python48280

• gtonkinhill/panaroo

  An updated pipeline for pangenome investigation

  Language:Python27233

• J-SNACKKB/FLIP

  A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design

  Language:Jupyter Notebook9514

• imartayan/CBL

  A Rust library providing fully dynamic sets of k-mers with high locality

  Language:Rust44

• wheretrue/fasql

  DuckDB Extension for reading and writing FASTA and FASTQ Files

  Language:C++204

• wheretrue/exon-duckdb

  DuckDB Extension for working with bioinformatic data.

  Language:C++114

• chriskiehl/Gooey

  Turn (almost) any Python command line program into a full GUI application with one line

  Language:Python20.8k1k

• section83/MacYTDL

  A macOS GUI front-end for the YT-DLP video downloader

  Language:AppleScript57226

• pettiboy/cra-template-firebase-starter

  A quick start Create React App template with react-router-dom, material-ui, gh-pages and firebase. With google authentication, routing and deployment capabilities built in.

  Language:JavaScript225

• A4Bio/ProteinInvBench

  The official implementation of the NeurIPS'23 paper ProteinInvBench: Benchmarking Protein Design on Diverse Tasks, Models, and Metrics

  Language:Python1728

• delalamo/DdA_dissertation

  My PhD dissertation from August 2021

  Language:TeX1

• St4NNi/jam-rs

  Just another minhash implementation.

  Language:Rust121

• mnielsen/neural-networks-and-deep-learning

  Code samples for my book "Neural Networks and Deep Learning"

  Language:Python16.3k6.6k

• bgavran/Category_Theory_Machine_Learning

  List of papers studying machine learning through the lens of category theory

  Language:Python1.3k78

• opendilab/awesome-AI-based-protein-design

  A collection of research papers for AI-based protein design

  23515

• agemagician/ProtTrans

  ProtTrans is providing state of the art pretrained language models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using Transformers Models.

  Language:Jupyter Notebook1.2k155

• fayjustin/computational_biology

  course material

  Language:Jupyter Notebook12320

• kevingreenman/awesome-chemical-engineering-education

  A curated list of online chemical engineering education resources

  13616

• HackYourFuture/post-grad-ed

  Improve your coding skills mentored by a professional developer and solve real technical assignment from real companies!

  Language:HTML2327

• Nance-Lab/diff_visualizer

  Package for efficiently and reproducibly creating data visualizations for nanoparticle diffusion data

  Language:Jupyter Notebook1