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@szczurek-lab Ewa Szczurek lab

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    42 repositories

    • amp-challenge-website

      Public
      TypeScript
      •0•0•0•0•Updated Apr 2, 2026Apr 2, 2026

    • amp-challenge-2027

      Public
      Instructions for the AMP challenge 2027
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Apr 2, 2026Apr 2, 2026

    • ClonalGE

      Public
      Python
      •0•0•0•0•Updated Apr 1, 2026Apr 1, 2026

    • seqme

      Public
      Metrics for evaluating biological sequence design
      benchmarkmetricsproteins
      benchmarkmetricsproteinsdnarnadrug-designmoleculespeptidesbiological-sequences
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•14•0•0•Updated Mar 28, 2026Mar 28, 2026

    • seqme-esmif1

      Public
      Python
      •0•0•0•0•Updated Mar 28, 2026Mar 28, 2026

    • seqme-thirdparty

      Public
      Third-party models for seqme
      Python
      •0•0•0•0•Updated Mar 27, 2026Mar 27, 2026

    • seqme-reproducibility

      Public
      Code to reproduce the case studies in seqme
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•1•Updated Mar 26, 2026Mar 26, 2026

    • omegamp-dashboard

      Public
      OmegAMP wet-lab dashboard
      HTML
      •0•0•0•0•Updated Mar 22, 2026Mar 22, 2026

    • seqme-amPEPpy

      Public
      Python
      •0•0•0•0•Updated Mar 21, 2026Mar 21, 2026

    • seqme-amplify

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Mar 21, 2026Mar 21, 2026

    • CaClust

      Public
      R
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Feb 26, 2026Feb 26, 2026

    • Tumoroscope

      Public
      HTML
      •
      GNU General Public License v3.0
      •0•5•1•0•Updated Feb 25, 2026Feb 25, 2026

    • protein-gifs

      Public
      Pipeline for generating animated GIF visualizations of protein structures using PyMOL
      Python
      •0•0•0•0•Updated Feb 24, 2026Feb 24, 2026

    • PepGlider

      Public
      Python
      •0•0•0•0•Updated Feb 19, 2026Feb 19, 2026

    • FACTM

      Public
      Jupyter Notebook
      •
      MIT License
      •0•3•0•0•Updated Feb 18, 2026Feb 18, 2026

    • DelSIEVE_analysis

      Public
      Reproducible benchmarking and real data analysis of SIEVE.
      R
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Feb 17, 2026Feb 17, 2026

    • DelSIEVE_benchmark_pipeline

      Public
      Benchmarking framework for DelSIEVE.
      Python
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Feb 17, 2026Feb 17, 2026

    • DelSIEVE_simulator

      Public
      The simulator for DelSIEVE.
      C
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Feb 17, 2026Feb 17, 2026

    • DelSIEVE

      Public
      Java
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated Feb 17, 2026Feb 17, 2026

    • SIEVE_analysis

      Public
      Reproducible benchmarking and real data analysis of SIEVE.
      R
      •
      GNU General Public License v3.0
      •0•2•0•0•Updated Feb 17, 2026Feb 17, 2026

    • SIEVE_benchmark_pipeline

      Public
      Benchmarking framework for SIEVE.
      Python
      •0•3•0•0•Updated Feb 17, 2026Feb 17, 2026

    • SIEVE_simulator

      Public
      The simulator for SIEVE.
      C
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Feb 17, 2026Feb 17, 2026

    • DataFilter

      Public
      Selecting candidate single-nucleotide variant sites with read counts for SIEVE.
      C++
      •
      GNU General Public License v3.0
      •1•3•0•0•Updated Feb 17, 2026Feb 17, 2026

    • SIEVE

      Public
      Joint inference of single-nucleotide variants and cell phylogeny from scDNA-seq.
      Java
      •
      GNU General Public License v3.0
      •1•4•1•0•Updated Feb 17, 2026Feb 17, 2026

    • CLING

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Dec 28, 2025Dec 28, 2025

    • cellohood-analyses

      Public
      Repository with analyses performed by Cellohood.
      Jupyter Notebook
      •0•0•0•0•Updated Nov 28, 2025Nov 28, 2025

    • ProSpero

      Public
      ProSpero: Active Learning for Robust Protein Design Beyond Wild-Type Neighborhoods [NeurIPS 2025]
      Python
      •
      GNU General Public License v3.0
      •1•5•0•0•Updated Nov 28, 2025Nov 28, 2025

    • cellohood

      Public
      Reposity for Cellohood model
      Jupyter Notebook
      •0•0•0•0•Updated Nov 25, 2025Nov 25, 2025

    • hyformer

      Public
      Official implementation of Hyformer, a joint transformer that unifies a generative decoder with a predictive encoder.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•14•0•1•Updated Nov 11, 2025Nov 11, 2025

    • ST-Assign

      Public
      ST-Assign
      Python
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Jan 22, 2025Jan 22, 2025
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