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@krishnanlab

Krishnan Lab

Laboratory for Computational Genomics and Biomedical Data Science
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  1. PecanPy PecanPy Public

    A fast, parallelized, memory efficient, and cache-optimized Python implementation of node2vec

    Python 156 22

  2. teaching teaching Public

    Courses & workshops led by members of the Krishnan Lab.

    Jupyter Notebook 23 19

  3. txt2onto txt2onto Public

    Code for classifying unstructured text to tissue ontology terms using natural language processing and machine learning.

    Python 23 6

  4. obnb obnb Public

    A Python toolkit for setting up benchmarking dataset using biomedical networks

    Python 21 1

  5. PyGenePlexus PyGenePlexus Public

    A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input gene list.

    Python 20 3

  6. RNAseq_coexpression RNAseq_coexpression Public

    In-depth analysis of normalization and transformation methods for building coexpression networks from RNA-seq data.

    HTML 11 3

Repositories

Showing 10 of 34 repositories
  • PyGenePlexus Public

    A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input gene list.

    krishnanlab/PyGenePlexus’s past year of commit activity
    Python 20 3 10 6 Updated Nov 15, 2024
  • geneplexus-app-v2 Public

    GenePlexus App - backend (cloud functions) and frontend

    krishnanlab/geneplexus-app-v2’s past year of commit activity
    TypeScript 2 0 6 0 Updated Nov 15, 2024
  • .github Public
    krishnanlab/.github’s past year of commit activity
    Python 0 BSD-3-Clause 0 0 9 Updated Nov 1, 2024
  • pydab Public

    A _blazingly fast_ Python package for modifying and converting DAB files

    krishnanlab/pydab’s past year of commit activity
    Python 3 MIT 0 3 6 Updated Oct 29, 2024
  • PecanPy Public

    A fast, parallelized, memory efficient, and cache-optimized Python implementation of node2vec

    krishnanlab/PecanPy’s past year of commit activity
    Python 156 BSD-3-Clause 22 15 (1 issue needs help) 6 Updated Oct 29, 2024
  • obnb Public

    A Python toolkit for setting up benchmarking dataset using biomedical networks

    krishnanlab/obnb’s past year of commit activity
    Python 21 MIT 1 57 8 Updated Oct 29, 2024
  • txt2onto_prediction_workflow Public

    Finding public RNA-seq samples and studies related to the list of diseases requested by Lucas Gillenwater

    krishnanlab/txt2onto_prediction_workflow’s past year of commit activity
    Python 0 0 0 0 Updated Oct 25, 2024
  • txt2onto_predictions Public

    This repository, txt2onto_predictions, contains various predictions and analyses based on multiple requests from other researchers. The goal of this repository is to compile all the requested analyses in one place.

    krishnanlab/txt2onto_predictions’s past year of commit activity
    0 0 0 0 Updated Sep 23, 2024
  • cross-species-knowledge-transfer-paper-and-data Public

    Repo houses paper reviewed in cross species knowledge transfer paper and related data

    krishnanlab/cross-species-knowledge-transfer-paper-and-data’s past year of commit activity
    0 Apache-2.0 0 0 0 Updated Aug 29, 2024
  • microbiome-metadata-annotation Public

    Training text-based ML models to predict protocols for microbiome samples

    krishnanlab/microbiome-metadata-annotation’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Aug 27, 2024
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