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    36 repositories

    • PhyloProfile

      Public
      A phylogenetic profile analysis tool
      visualizationshinyheatmapphylogenetic-profileinteractive-visualizationsorthologsbioinformaticsr
      R
      •
      Other
      •9•32•10•0•Updated Oct 7, 2024Oct 7, 2024

    • bionf_cookiecutter

      Public
      A minimalist cookiecutter for research and data science projects
      Python
      •
      GNU General Public License v3.0
      •35•0•0•0•Updated Sep 24, 2024Sep 24, 2024

    • cell_wall

      Public
      Jupyter Notebook
      •1•0•0•0•Updated Sep 11, 2024Sep 11, 2024

    • XspecT2

      Public
      XspecT is a very fast, memory efficient and easy-to-use tool to taxonomically classify raw sequence-data, whole genome assemblies or metagenomes on the species level
      Python
      •
      MIT License
      •0•0•0•0•Updated Sep 9, 2024Sep 9, 2024

    • FAS

      Public
      FAS - Tool for Feature Architecture Similarity calculation
      proteinsprotein-domainsfeature-architecturesprotein-comparison
      Python
      •
      GNU General Public License v3.0
      •1•5•3•0•Updated Sep 5, 2024Sep 5, 2024

    • taXaminer

      Public
      Interactive exploration of biodiverse genome assemblies
      Python
      •
      MIT License
      •2•2•0•0•Updated Aug 7, 2024Aug 7, 2024

    • fDOG

      Public
      Feature-aware Directed OrtholoG search
      orthology-inferenceorthologsorthologypython
      Python
      •
      GNU General Public License v3.0
      •3•9•4•0•Updated Jun 20, 2024Jun 20, 2024

    • digital_competence

      Public
      Jupyter Notebook
      •2•0•0•0•Updated Mar 26, 2024Mar 26, 2024

    • PhyloProfileCorona

      Public
      Lite version of PhyloProfile for corona data
      R
      •
      MIT License
      •2•0•0•0•Updated Feb 19, 2024Feb 19, 2024

    • PhyloRBF

      Public
      visualizationrphylogeneticsribosome-profilingribosome
      R
      •
      MIT License
      •1•0•0•0•Updated Feb 19, 2024Feb 19, 2024

    • fCAT

      Public
      Python package for fCAT, a feature-aware completeness assessment tool
      Python
      •
      GNU General Public License v3.0
      •1•2•3•0•Updated Feb 15, 2024Feb 15, 2024

    • sharingiscaring

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jan 16, 2024Jan 16, 2024

    • uGene

      Public
      Complementary software to PhyloProfile, designed for preprocessing extensive phylogenetic profiles.
      Python
      •
      Other
      •0•0•0•0•Updated Jan 10, 2024Jan 10, 2024

    • XspecT

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Dec 14, 2023Dec 14, 2023

    • taxaminer-dashboard

      Public
      Web-based visualization and exploration of taXaminer datasets
      TypeScript
      •
      MIT License
      •1•1•3•0•Updated Dec 7, 2023Dec 7, 2023

    • Syntgeny

      Public
      Python
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Oct 25, 2023Oct 25, 2023

    • SPICE

      Public
      Tool that utilizes FAS on entire sets of transcripts to assess the impact of alternative splicing on proteome function.
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 23, 2023Oct 23, 2023

    • ncortho

      Public
      Targeted ortholog search for miRNAs
      Python
      •
      GNU General Public License v3.0
      •2•0•0•0•Updated Jul 18, 2023Jul 18, 2023

    • MATT

      Public
      MATT
      JavaScript
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated Jul 16, 2023Jul 16, 2023

    • data4travis

      Public
      Data for testing in-house tools with travis-ci
      GNU General Public License v3.0
      •0•0•0•0•Updated May 24, 2023May 24, 2023

    • g_nom

      Public
      TypeScript
      •2•0•0•0•Updated Mar 29, 2023Mar 29, 2023

    • BIOM

      Public
      BIOlogical data Management Tool
      Python
      •1•0•0•0•Updated Nov 2, 2022Nov 2, 2022

    • CEPLA

      Public
      Pairwise comparisons of proteins based on their epitope landscape profiles
      OpenEdge ABL
      •1•0•0•0•Updated May 19, 2022May 19, 2022

    • dcc2

      Public
      Dynamic core orthologs compilation tool
      pythonorthology-inferenceomaorthologyhamstrh1s
      Python
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Feb 10, 2022Feb 10, 2022

    • protTrace

      Public
      A simulation based framework to estimate the evolutionary traceability of protein.
      Python
      •4•5•1•0•Updated Sep 30, 2021Sep 30, 2021

    • vicinator

      Public
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Sep 29, 2021Sep 29, 2021

    • PhyloProfileData

      Public
      The PhyloProfileData package provides a collection of datasets to accompany the PhyloProfile package
      R
      •
      MIT License
      •0•0•0•0•Updated Jun 29, 2021Jun 29, 2021

    • HaMStR

      Public
      Feature-aware orthology prediction tool. Provided data package: Quest for Orthologs reference gene sets 2019.
      orthology-inferencehomology-searchorthologyhomology
      Perl
      •
      GNU General Public License v3.0
      •2•9•6•0•Updated Oct 6, 2020Oct 6, 2020

    • phylosophy

      Public
      R Toolkit for generating and exploring phylogenetic profiles
      R
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Sep 25, 2020Sep 25, 2020

    • conda-recipes

      Public
      Conda recipes
      Shell
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 17, 2020Aug 17, 2020