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@KellisLab MIT CompBio Group

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    32 repositories

    • scMOSAIC

      Public
      scMOSAIC is an R package for processing targeted PacBio long-read sequencing generated from 10x Genomics Multiome ATAC libraries and linking locus-specific DNA …
      R
      •
      Other
      •0•1•0•0•Updated Sep 1, 2026Sep 1, 2026

    • Mantis-Discord-Bot

      Public
      Python
      •0•0•1•0•Updated Aug 31, 2026Aug 31, 2026

    • evolutionDeepLearning

      Public
      Analysis scripts associated with "Deep learning predicts cis-regulatory turnover in human evolution". Mangan et al, BioRxiv 2025.
      R
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Aug 21, 2026Aug 21, 2026

    • actionet-python

      Public
      Jupyter Notebook
      •
      MIT License
      •0•1•1•0•Updated Aug 21, 2026Aug 21, 2026

    • auto-meeting-minutes

      Public
      Python
      •2•0•1•5•Updated Aug 18, 2026Aug 18, 2026

    • libactionet

      Public
      C++
      •
      MIT License
      •0•0•0•0•Updated Aug 16, 2026Aug 16, 2026

    • Mantis_SDK

      Public
      Python
      •
      Other
      •1•6•2•5•Updated Aug 7, 2026Aug 7, 2026

    • actionet-r

      Public
      R
      •
      MIT License
      •0•0•0•0•Updated Aug 1, 2026Aug 1, 2026

    • benj

      Public
      benj benj benj
      Python
      •
      GNU General Public License v3.0
      •1•5•0•0•Updated Jul 27, 2026Jul 27, 2026

    • Phenoverse

      Public
      Deep interpretable learning of sample representations for characterizing disease states in single-cell transcriptomics
      samplemachine-learningbioinformatics
      samplemachine-learningbioinformaticsbiologypatientcomputational-biologyartificial-intelligencediseasephenotypeomics
      Python
      •
      MIT License
      •0•10•0•0•Updated Jul 23, 2026Jul 23, 2026

    • mantis-cli

      Public
      Mantis developer CLI — manage spaces, create maps, and configure Claude Code integration.
      JavaScript
      •
      MIT License
      •1•2•2•0•Updated Jul 23, 2026Jul 23, 2026

    • MantisExtensionsBackend

      Public
      Python
      •0•1•0•0•Updated Jul 4, 2026Jul 4, 2026

    • generator-mantis

      Public
      Yeoman generator for Mantis extension bundles
      JavaScript
      •
      MIT License
      •0•1•0•0•Updated May 6, 2026May 6, 2026

    • CellProjectedPhenotypes

      Public
      Projecting donor-level phenotypes onto single cells through KNN-neighborhood abundance association analysis.
      R
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Apr 29, 2026Apr 29, 2026

    • MIT-6.390-Lab-8-Representation-Learning

      Public
      MIT 6.390 Lab 8: Representation Learning & Latent Evolution. An interactive module where students train PyTorch models on Wikipedia and BBC data to capture deep…
      Jupyter Notebook
      •0•0•0•0•Updated Apr 3, 2026Apr 3, 2026

    • mantis_course

      Public
      0•0•0•0•Updated Jan 3, 2026Jan 3, 2026

    • MantisExtensions

      Public
      TypeScript
      •3•1•2•6•Updated Dec 11, 2025Dec 11, 2025

    • haploreg-next-v5

      Public
      TypeScript
      •0•0•0•0•Updated Dec 4, 2025Dec 4, 2025

    • banksy-hd

      Public
      BANKSY for high dimensional spatial transcriptomics (like Visium HD)
      Python
      •
      GNU General Public License v3.0
      •0•5•0•0•Updated Nov 19, 2025Nov 19, 2025

    • deg-pipeline

      Public
      R
      •0•0•0•0•Updated Oct 1, 2025Oct 1, 2025

    • mantis_transcribe_minutes

      Public
      Python
      •1•0•0•1•Updated Jun 16, 2025Jun 16, 2025

    • human_metab

      Public
      R
      •0•0•0•0•Updated May 14, 2025May 14, 2025

    • scdemon

      Public
      single-cell decorrelated module networks
      Python
      •
      GNU General Public License v3.0
      •2•34•1•0•Updated Aug 24, 2024Aug 24, 2024

    • scCancer

      Public
      metastatic melanoma project
      Jupyter Notebook
      •1•4•0•0•Updated Jun 20, 2024Jun 20, 2024

    • miBrain

      Public
      R
      •
      GNU General Public License v3.0
      •0•3•0•0•Updated Jan 25, 2024Jan 25, 2024

    • epiclust

      Public
      Python
      •
      GNU General Public License v3.0
      •1•4•1•0•Updated Nov 11, 2023Nov 11, 2023

    • AD_regulome_analysis

      Public
      AD regulome analysis
      R
      •3•16•1•0•Updated Apr 4, 2023Apr 4, 2023

    • scmetab

      Public
      single-cell and bulk RNA-seq pipeline used in the project
      R
      •2•1•0•0•Updated Jan 14, 2023Jan 14, 2023

    • neurogen-student

      Public
      Jupyter Notebook
      •1•1•0•0•Updated Nov 20, 2022Nov 20, 2022

    • EpiMap_GRCh38_linking

      Public
      Remapping of EpiMap linking onto GRCh38
      Python
      •0•0•0•0•Updated Oct 5, 2022Oct 5, 2022
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