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@songlab-cal

Song Lab @ Cal

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  1. tape tape Public

    Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.

    Python 662 129

  2. gpn gpn Public

    Genomic Pre-trained Network

    Jupyter Notebook 190 24

Repositories

Showing 10 of 29 repositories
  • bcr-allelic-inclusion Public

    Model code and data for BCR allelic inclusion paper

    songlab-cal/bcr-allelic-inclusion’s past year of commit activity
    Jupyter Notebook 0 BSD-3-Clause 0 0 0 Updated Nov 6, 2024
  • phylogpn Public

    Code for "A Phylogenetic Approach to Genomic Language Modeling"

    songlab-cal/phylogpn’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Oct 29, 2024
  • forward-equivalent-trees Public

    Efficiently simulating multi-type birth-death processes via forward-equivalent parameter mapping

    songlab-cal/forward-equivalent-trees’s past year of commit activity
    Jupyter Notebook 0 MIT 0 1 0 Updated Oct 16, 2024
  • gpn Public

    Genomic Pre-trained Network

    songlab-cal/gpn’s past year of commit activity
    Jupyter Notebook 190 MIT 24 2 0 Updated Oct 10, 2024
  • CherryML Public

    Scalable Maximum Likelihood Estimation of Phylogenetic Models

    songlab-cal/CherryML’s past year of commit activity
    Python 8 BSD-3-Clause 1 1 2 Updated Jun 19, 2024
  • scquint Public
    songlab-cal/scquint’s past year of commit activity
    Jupyter Notebook 15 MIT 1 1 1 Updated May 31, 2024
  • flinty Public

    A Simple and Flexible Test of Sample Exchangeability with Applications to Statistical Genomics

    songlab-cal/flinty’s past year of commit activity
    Python 2 1 0 0 Updated Feb 5, 2024
  • StratPGS Public

    Performance Inflation and Perturbation Sensitivity of PGSs

    songlab-cal/StratPGS’s past year of commit activity
    R 0 0 0 0 Updated Feb 5, 2024
  • CPT Public

    Cross-protein transfer learning for variant effect prediction

    songlab-cal/CPT’s past year of commit activity
    Jupyter Notebook 17 BSD-3-Clause 3 1 0 Updated Sep 13, 2023
  • HiDENSEC Public

    Code for Tracing cancer evolution and heterogeneity using Hi-C

    songlab-cal/HiDENSEC’s past year of commit activity
    Jupyter Notebook 2 0 0 0 Updated Sep 4, 2023
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