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    14 repositories

    • 2024-MSTP-Bioinformatics-Bootcamp

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Aug 26, 2024Aug 26, 2024

    • RUNX1_SEUSS

      Public
      Code and data to reproduce analyses from Ozturk et al
      MIT License
      •0•0•0•0•Updated Jun 11, 2024Jun 11, 2024

    • PSTP_bootcamp_2024

      Public
      Materials for PSTP bootcamp
      0•2•0•0•Updated Apr 12, 2024Apr 12, 2024

    • MHC_reliance

      Public
      Code to reproduce analysis for Sears et al.
      R
      •
      MIT License
      •0•0•0•0•Updated Jan 16, 2024Jan 16, 2024

    • meQTLs

      Public
      Code to reproduce analyses presented in Goudarzi et al
      Jupyter Notebook
      •
      MIT License
      •0•1•0•0•Updated Jul 20, 2023Jul 20, 2023

    • MelMHC

      Public
      Bruce AI-MHC-Ighty: Code and data needed to reproduce the analyses by Talwar et al. from "Autoimmune Alleles at the Major Histocompatibility Locus Modify Melanoma Susceptibility"
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 5, 2023May 5, 2023

    • TIMEgermline

      Public
      Reproducibility of "Germline modifiers of the tumor immune microenvironment implicate drivers of cancer risk and immunotherapy response"
      Jupyter Notebook
      •
      MIT License
      •0•5•0•0•Updated Apr 2, 2023Apr 2, 2023

    • TERT_adaptive_immune_score

      Public
      Code and data for manuscript
      Jupyter Notebook
      •0•0•0•0•Updated Feb 3, 2023Feb 3, 2023

    • CLAIM-scAEs

      Public
      A tutorial for using an autoencoder neural network model to create a visually interpretable latent space of single cell expression data.
      Jupyter Notebook
      •1•3•4•0•Updated Jul 17, 2022Jul 17, 2022

    • Ploc

      Public
      Code for analysis of protein location as a determinant of neopeptide immunogenicity
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•3•0•0•Updated Nov 1, 2021Nov 1, 2021

    • PredictMEE

      Public
      This repository provides code related to our manuscript describing the use of NLP to infer missing metadata in the SRA
      Jupyter Notebook
      •0•2•1•0•Updated Aug 2, 2021Aug 2, 2021

    • NetFeatures

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •2•1•0•0•Updated Jul 20, 2021Jul 20, 2021

    • SCNA_score_analysis

      Public
      Code to reproduce analysis and figures from Xian et al.
      Jupyter Notebook
      •0•1•0•0•Updated Feb 26, 2021Feb 26, 2021

    • SARS_CoV_2_T-B_co-op

      Public
      Code to reproduce analyses related to class II restriction of the Sars-CoV-2 spike protein
      Jupyter Notebook
      •0•0•0•0•Updated Oct 20, 2020Oct 20, 2020