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@KoslickiLab

KoslickiLab

Welcome to the Koslicki lab 👋👋

The Koslicki lab focuses on computational biology. We are interested in developing efficient, mathematically sound approaches to extract insight from omics data. This puts our research squarely at the intersection of biology, mathematics, and computer science. We are particularly interested in the entire arc of developing computational biology methods: rigorous mathematical justification of a method, implementing the method into a tool usable by the community, applying the tool to pressing scientific problems, and finally using the results to inform further development of computational techniques.

Resources

  1. Contents in the shared_folder on the servers (KEGG, GTDB, etc.)
  2. Koslicki Lab Google Drive (requires Dr. Koslicki adding you to it)
  3. Print posters at PSU

Thesis Q&A

Thesis information: Let's share resources/questions/tips here for reference

Commencement information

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  1. useful_tools Public

    Lab forum to share scripts, software, and technical issues

    Shell 3

  2. .github Public

    Public profile

  3. Koslicki-lab-PSU Public

    Website for Koslicki Lab.

    HTML 3

Repositories

Showing 10 of 53 repositories
  • Python 0 0 0 0 Updated Mar 24, 2025
  • KEGG_sketching_annotation_reproducibles Public

    Reproducible scripts for all KEGG + Sourmash gather computations for the associated paper

    Python 0 MIT 1 1 0 Updated Mar 20, 2025
  • YACHT Public

    A mathematically characterized hypothesis test for organism presence/absence in a metagenome

    C++ 30 MIT 8 12 3 Updated Mar 19, 2025
  • bioconda-recipes Public Forked from bioconda/bioconda-recipes

    Conda recipes for the bioconda channel.

    Shell 0 MIT 3,433 0 0 Updated Mar 9, 2025
  • fmh-funprofiler Public

    A functional profiler for metagenomes using FracMinHash

    Python 16 1 2 0 Updated Feb 14, 2025
  • DnDs-visualization Public

    A repo for the larger scale DnDs project, along with the visualization code

    Jupyter Notebook 0 MIT 0 0 0 Updated Feb 13, 2025
  • Beta-diversity-of-mixtures-over-time Public

    Beta diversity of mixtures over time

    Python 0 0 0 0 Updated Feb 7, 2025
  • fmh_cosine_reproducibles Public

    Reproducibility code for the manuscript "Cosine similarity using FracMinHash sketches"

    Python 0 0 0 0 Updated Jan 30, 2025
  • LLMFactCheck Public

    The "LLMFactCheck" is a powerful tool designed to semantic triples (subject–predicate–object) in different sources, ensuring the accuracy of references and enhancing the quality of your research.

    Python 1 MIT 0 10 1 Updated Jan 22, 2025
  • ML-on-MKG Public

    Machine learning on the metagenomics knowledge graph

    Python 0 0 0 0 Updated Jan 16, 2025