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Achievement: Arctic Code Vault ContributorAchievement: Pull Sharkx2Achievement: Starstruck

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  • autism_rnaseq Public

    Collaboration with Chetty lab to analyze Autism RNA-seq datasets

    Jupyter Notebook 4 MIT License Updated Aug 31, 2024

  • sherlockstoolkit Public

    Forensic DNA analysis pipeline that analyzes SNP/STR data and performs downstream analysis (biogeographic ancestry, kinship, replicate analysis, mixture inclusion/exclusion)

    Python 7 1 GNU General Public License v3.0 Updated Dec 7, 2022

  • PyWGCNA Public

    Forked from mortazavilab/PyWGCNA

    PyWGCNA is a Python package designed to do Weighted correlation network analysis (WGCNA)

    Jupyter Notebook MIT License Updated Sep 20, 2022

  • deeplift Public

    Forked from kundajelab/deeplift

    Public facing deeplift repo

    Python MIT License Updated Mar 6, 2022

  • tfmodisco Public

    Forked from kundajelab/tfmodisco

    TF MOtif Discovery from Importance SCOres

    Jupyter Notebook MIT License Updated Jan 27, 2022

  • dragonn Public

    Forked from kundajelab/dragonn

    Deep Neural Networks Tutorial for Regulatory Genomics

    Jupyter Notebook MIT License Updated Jan 26, 2022

  • nobel_lab_projects Public

    Projects for Nobel Lab https://nobel.bme.umich.edu/

    Jupyter Notebook 3 Updated Apr 2, 2021

  • download_gt3x_files_from_CentrePoint_API_In_Python Public

    Python scripts to download .gt3x files from Actigraph's CentrePoint, using the CP2 API.

    Python Updated Jan 4, 2021

  • shap Public

    Forked from kundajelab/shap

    A unified approach to explain the output of any machine learning model.

    Jupyter Notebook MIT License Updated Dec 12, 2020

  • lsgkm Public

    Forked from kundajelab/lsgkm
    C GNU General Public License v3.0 Updated Sep 6, 2020

  • simdna Public

    Forked from kundajelab/simdna

    A python library for creating simulated regulatory DNA sequences

    Python MIT License Updated Aug 10, 2020

  • atac-seq-pipeline Public

    Forked from ENCODE-DCC/atac-seq-pipeline

    ENCODE ATAC-seq pipeline

    Python MIT License Updated Jul 23, 2020

  • chip-seq-pipeline2 Public

    Forked from ENCODE-DCC/chip-seq-pipeline2

    ENCODE ChIP-seq pipeline

    Python MIT License Updated Jul 23, 2020

  • mseqgen Public

    Forked from kundajelab/mseqgen

    Multi task batch generator for training deep learning models on CHIP-seq, CHIP-exo, CHIP-nexus, ATAC-seq, RNA-seq (or any other -seq)

    Python MIT License Updated Jul 2, 2020

  • synapse_mhc_scripts Public

    R 1 Updated Jul 23, 2018

  • sml Public

    Jupyter Notebook Updated May 5, 2018

  • myExampleRepo Public

    Updated Sep 21, 2017

  • EXPLORE Public

    Gene expression tutorial for EXPLORE course

    Jupyter Notebook 1 Updated Jul 26, 2017

  • bmi217 Public

    Code for BMI217 project on colorectal cancer pathogenic variant prediction

    Python 1 1 Updated Mar 16, 2017

  • deeplearning_inputs Public

    Python Updated Jan 12, 2017

  • avutils Public

    Forked from kundajelab/avutils

    Place to start factoring out code from av scripts

    Python Updated Nov 19, 2016

  • NeuralNetworkForRealTimeCardiacArrhythmiaDetection Public

    source code for BMI212 Arrhythmia Busters team, Spring 2016

    1 Updated Jun 4, 2016

  • gecco-rna-analysis Public

    Forked from kundajelab/bulk-rna-seq

    Pipeline for gecco RNA-seq analysis

    Shell Updated Apr 11, 2016

  • cs231n_project Public

    mini_image_net_challenge_cs231n_project

    Python 5 3 Updated Mar 14, 2016

  • BMI210_NovelGeneCandidatesForDisease Public

    Code for BMI210 final project: Finding novel gene candidates for rare diseases

    Python Updated Mar 11, 2016

  • bmi214 Public

    Python Updated Nov 10, 2015

  • FASTQSim Public

    Platform-Independent Data Characterization and in Silico Read Generation for NGS Datasets

    Python 3 GNU General Public License v3.0 Updated Nov 4, 2013

  • CodonSub Public

    Codon substitution script

    GNU General Public License v2.0 Updated Aug 19, 2013

  • NGSim Public

    Platform-Independent Data Characterization and in Silico Read Generation for NGS Datasets

    GNU General Public License v2.0 Updated Aug 19, 2013