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    16 repositories

    • CodonFM

      Public
      A family of codon-resolution language models trained on 130 million protein-coding sequences from over 20,000 species.
      Python
      •
      Apache License 2.0
      •13•0•0•0•Updated Nov 1, 2025Nov 1, 2025

    • system-prompts-and-models-of-ai-tools

      Public
      FULL v0, Cursor, Manus, Augment Code, Same.dev, Lovable, Devin, Replit Agent, Windsurf Agent, VSCode Agent, Dia Browser, Xcode, Trae AI, Cluely & Orchids.app (A…
      GNU General Public License v3.0
      •34k•0•0•0•Updated Aug 24, 2025Aug 24, 2025

    • cambrium-RFdiffusion

      Public
      Code for running RFdiffusion
      Python
      •
      Other
      •602•0•0•0•Updated Sep 14, 2023Sep 14, 2023

    • atacseq-pipeline

      Public
      ATAC-seq peak-calling, QC and differential analysis pipeline
      Nextflow
      •
      MIT License
      •135•0•0•0•Updated Jun 7, 2023Jun 7, 2023

    • packagerepo_sampleproject

      Public archive
      A sample project that exists for PyPUG's "Tutorial on Packaging and Distributing Projects"
      Python
      •
      MIT License
      •1.7k•0•0•0•Updated Apr 26, 2023Apr 26, 2023

    • ProteinMPNN

      Public
      Cloud Run deployed version of the ProteinMPNN model. ProteinMPNN predicts the amino acid sequence from a backbone structure with lower compute resources and hig…
      Jupyter Notebook
      •
      MIT License
      •457•0•0•0•Updated Jun 8, 2022Jun 8, 2022

    • hmmer-profile-parser

      Public
      A hacky python script parsing a hmm file into parquet saved dataframes
      Jupyter Notebook
      •0•0•0•0•Updated May 31, 2022May 31, 2022

    • ColabFold

      Public archive
      Making Protein folding accessible to all via Google Colab!
      Jupyter Notebook
      •
      MIT License
      •714•0•0•0•Updated Feb 22, 2022Feb 22, 2022

    • my_first_flask_app

      Public archive
      Simple flask app with web UI. Takes text input. When button clicked it displays the text that was input.
      CSS
      •2•0•0•0•Updated Feb 18, 2022Feb 18, 2022

    • localcolabfold

      Public archive
      ColabFold on your local PC
      Python
      •
      MIT License
      •180•0•0•0•Updated Feb 8, 2022Feb 8, 2022

    • alphafold

      Public
      Open source code for AlphaFold.
      Python
      •
      Apache License 2.0
      •2.6k•0•0•0•Updated Nov 5, 2021Nov 5, 2021

    • dockerfiles

      Public archive
      Dockerfile
      •23•0•0•0•Updated Nov 4, 2021Nov 4, 2021

    • SecrifyDL

      Public
      Protein secretability prediction in Pichia
      Python
      •2•0•0•0•Updated Sep 30, 2021Sep 30, 2021

    • low-N-protein-engineering

      Public
      Code and data to reproduce analyses in Biswas et al. (2020) "Low-N protein engineering with data-efficient deep learning".
      Jupyter Notebook
      •19•0•0•0•Updated May 3, 2021May 3, 2021

    • UniRep

      Public
      UniRep model, usage, and examples.
      Python
      •96•0•0•0•Updated May 3, 2021May 3, 2021

    • notionbackup

      Public
      A small utility command line application that can recursively download Notion pages
      Go
      •6•0•0•0•Updated Apr 17, 2021Apr 17, 2021
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