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@PNNL-CompBio

Computational Biology @Pacific Northwest National Laboratory

This site is for repositories for computational biology work performed at the Pacific Northwest National Laboratory, a Department of Energy National Laboratory.

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  1. 3D_Scaffold 3D_Scaffold Public

    Python 25 4

  2. decomprolute decomprolute Public

    A suite of scientific workflows to assess metrics to compare efficacy of protein-based tumor deconvolution algorithms.

    Common Workflow Language 16 4

  3. Snekmer Snekmer Public

    Pipeline to apply encoded Kmer analysis to protein sequences

    Python 12 1

  4. pf-gnn_pli pf-gnn_pli Public

    Python 12 5

  5. ML_UVvisModels ML_UVvisModels Public

    Jupyter Notebook 12 1

  6. coderdata coderdata Public

    Automation scripts and benchmark dataset package for cancer drug prediction deep learning models.

    Jupyter Notebook 11 3

Repositories

Showing 10 of 88 repositories
  • coderdata Public

    Automation scripts and benchmark dataset package for cancer drug prediction deep learning models.

    PNNL-CompBio/coderdata’s past year of commit activity
    Jupyter Notebook 11 3 33 (1 issue needs help) 2 Updated Dec 27, 2024
  • srpAnalytics Public

    This repository contains the code necessary to process any new data for the Superfund Research Program Analytics Portal.

    PNNL-CompBio/srpAnalytics’s past year of commit activity
    R 5 MIT 1 4 0 Updated Dec 26, 2024
  • MPNST_Chr8 Public
    PNNL-CompBio/MPNST_Chr8’s past year of commit activity
    R 0 MIT 0 0 0 Updated Dec 19, 2024
  • spammR Public

    Spatial Analysis of Multiomics Measurement in R

    PNNL-CompBio/spammR’s past year of commit activity
    R 6 0 6 0 Updated Dec 11, 2024
  • AML_sorted_proteomics Public Forked from CamiloPosso/Exp18_cell_lines
    PNNL-CompBio/AML_sorted_proteomics’s past year of commit activity
    R 0 MIT 1 0 0 Updated Dec 9, 2024
  • bmdrc Public

    Python library for the calculation of benchmark dose response curves

    PNNL-CompBio/bmdrc’s past year of commit activity
    Jupyter Notebook 1 BSD-2-Clause 1 0 0 Updated Dec 7, 2024
  • Snekmer Public

    Pipeline to apply encoded Kmer analysis to protein sequences

    PNNL-CompBio/Snekmer’s past year of commit activity
    Python 12 BSD-3-Clause 1 26 3 Updated Dec 5, 2024
  • BoltzmannMFX Public

    BoltzmannMFX is a biological simulation code that solves chemical reaction networks using maximum entropy methods. It uses modules from MFiX-Exa and is based on the AMReX framework for massively parallel block-structured adaptive mesh applications.

    PNNL-CompBio/BoltzmannMFX’s past year of commit activity
    C++ 2 BSD-2-Clause 1 6 2 Updated Nov 28, 2024
  • cdrp Public
    PNNL-CompBio/cdrp’s past year of commit activity
    Python 1 0 0 1 Updated Sep 16, 2024
  • CLEAN-Contact Public

    PyTorch Implementation of CLEAN-Contact: Contrastive Learning-enabled Enzyme Functional Annotation Prediction with Structural Inference

    PNNL-CompBio/CLEAN-Contact’s past year of commit activity
    Python 6 4 0 0 Updated May 29, 2024
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