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README.md

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 useful_tools Public

    Lab forum to share scripts, software, and technical issues

    Shell 1 2

  2. .github .github Public

    Public profile

  3. Koslicki-lab-PSU Koslicki-lab-PSU Public

    Website for Koslicki Lab.

    HTML 3

Repositories

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Showing 10 of 66 repositories
  • dnds-using-fmh Public

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    KoslickiLab/dnds-using-fmh's past year of commit activity
    Python 3 0 1 1 Updated Nov 9, 2026
  • YACHT Public

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

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    KoslickiLab/YACHT's past year of commit activity
    C++ 39 MIT 11 16 7 Updated Oct 31, 2026
  • MaxGeomHash Public

    A sub-linear sampling algorithm

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    KoslickiLab/MaxGeomHash's past year of commit activity
    Python 2 1 0 0 Updated Oct 30, 2026
  • kmer-sketch Public

    C++ implementation of MinHash, bottom-k MinHash, FracMinHash, MaxGeomSampling, and alpha-MaxGeomSampling

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    KoslickiLab/kmer-sketch's past year of commit activity
    C++ 3 3 0 1 Updated Oct 30, 2026
  • SRA-metagenome-sketches-databases Public Forked from RolandFaure/SRA-metagenome-sketches-databases

    This repository describes how to access and interact with the databases containing the sketches of every dataset contained in Logan v1.

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    KoslickiLab/SRA-metagenome-sketches-databases's past year of commit activity
    C++ 0 MIT 2 0 0 Updated Oct 8, 2026
  • dnds_using_fmh_reproducibles Public

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    KoslickiLab/dnds_using_fmh_reproducibles's past year of commit activity
    Python 1 0 0 0 Updated Jul 31, 2026
  • Logan_Analyses Public

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    KoslickiLab/Logan_Analyses's past year of commit activity
    Jupyter Notebook 0 0 5 0 Updated Jul 22, 2026
  • DnDs-visualization Public

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

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    KoslickiLab/DnDs-visualization's past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Jul 14, 2026
  • ISMB-2026-workshop Public

    Tutorial using sourmash and YACHT for k-mer based analysis

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    KoslickiLab/ISMB-2026-workshop's past year of commit activity
    2 MIT 0 0 0 Updated Jul 2, 2026
  • DrugBankNER Public

    ETL of DrugBank to recognize KG2 concepts in DrugBank entries for use as training data

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    KoslickiLab/DrugBankNER's past year of commit activity
    Python 0 1 0 0 Updated May 12, 2026
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People

@dkoslicki @mahmudhera @chunyuma

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