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    18 repositories

    • Mg-Traits

      Public
      Shell
      •
      GNU General Public License v3.0
      •0•1•1•0•Updated Dec 27, 2024Dec 27, 2024

    • tiara-nal

      Public
      tiara – a tool for DNA sequence classification (NAL mod)
      Python
      •
      MIT License
      •9•0•0•2•Updated Dec 27, 2024Dec 27, 2024

    • metadecoder-nal

      Public
      An algorithm for clustering metagenomic sequences (NAL mod with Pyrodigal and PyHMMSearch)
      Python
      •
      GNU General Public License v3.0
      •4•0•0•0•Updated Dec 13, 2024Dec 13, 2024

    • metacoag-nal

      Public
      🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs (NAL mod with Pyrodigal and PyHMMSearch)
      Python
      •
      GNU General Public License v3.0
      •7•0•0•0•Updated Dec 13, 2024Dec 13, 2024

    • hyena-postTrain-loop

      Public
      Jupyter Notebook
      •0•1•2•0•Updated Nov 15, 2024Nov 15, 2024

    • pykofamsearch-stable

      Public
      Fast implementation of KofamScan optimized for high-memory systems using PyHmmer
      Python
      •
      MIT License
      •0•1•0•0•Updated Nov 8, 2024Nov 8, 2024

    • pyhmmsearch-stable

      Public
      Fast implementation of HMMSEARCH optimized for high-memory systems using PyHmmer
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 21, 2024Oct 21, 2024

    • veba-stable

      Public
      A modular end-to-end suite for in silico recovery, clustering, and analysis of prokaryotic, microeukaryotic, and viral genomes from metagenomes. Built by @jolespin, stable maintenance and containerization from NewAtlantis
      Python
      •
      GNU Affero General Public License v3.0
      •9•3•0•0•Updated Sep 25, 2024Sep 25, 2024

    • na-erdos-fellows-monorepo

      Public
      The central location for code in the NewAtlantis fellowship program
      Jupyter Notebook
      •
      Apache License 2.0
      •21•3•0•1•Updated Aug 16, 2024Aug 16, 2024

    • bioprospecting

      Public
      Jupyter Notebook
      •2•1•2•0•Updated Nov 24, 2023Nov 24, 2023

    • nal-notebook-templates

      Public
      a collection of notebook templates that are reflected on the cloud lab
      Jupyter Notebook
      •1•0•0•1•Updated Nov 2, 2023Nov 2, 2023

    • Living-Oceans

      Public
      🌊 Robust workflows for gathering data about your local ocean.
      pythonbioinformaticsmetagenomicspython3bioinformatics-pipelinemetagenomics-datametagenomics-toolkitjyputer-notebookdesci
      Jupyter Notebook
      •1•15•0•0•Updated Jul 19, 2023Jul 19, 2023

    • .github

      Public
      0•0•0•0•Updated Jun 20, 2023Jun 20, 2023

    • protocol-labs-demo

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Jun 7, 2023Jun 7, 2023

    • Metagenomics

      Public
      🐋 The Living Oceans Metagenome Taxanomic Profiling tool (beta) is a metagenomic pipeine built to work on your local ocean
      pythonbioinformaticsoceanmetagenomicspython3bioinformatics-pipelineplanktonmetagenomic-analysisgitcoinmetagenomic-pipeline
      Jupyter Notebook
      •
      Other
      •2•7•0•0•Updated Dec 18, 2022Dec 18, 2022

    • DiffDock_GPU_Stable

      Public
      Dockerized Version of the DiffDock model from MIT, Stable Release Maintained through NewAtlantis
      Jupyter Notebook
      •
      Apache License 2.0
      •5•0•0•0•Updated Dec 13, 2022Dec 13, 2022

    • presentations

      Public
      Materials notebooks for presentation/communications
      0•0•0•0•Updated Nov 10, 2022Nov 10, 2022

    • DeepLabCut

      Public
      Official implementation of DeepLabCut: Markerless pose estimation of user-defined features with deep learning for all animals incl. humans
      Python
      •
      GNU Lesser General Public License v3.0
      •1.7k•0•0•0•Updated Jul 29, 2022Jul 29, 2022