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    32 repositories

    • NSForest

      Public
      A machine learning method for the discovery of the minimum marker gene combinations for cell type identification from single-cell RNA sequencing
      machine-learningrandom-forestclustering
      machine-learningrandom-forestclusteringdecision-treessingle-cellmarker-genes
      HTML
      •
      MIT License
      •23•68•1•0•Updated Mar 26, 2026Mar 26, 2026

    • AMR-GeoMapper-Public

      Public
      JavaScript
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Mar 23, 2026Mar 23, 2026

    • CAMRA

      Public
      CAMRA is a DS-I Africa research hub focused on analyzing clinical and molecular data related to antimicrobial resistance (AMR) in bacterial infections in Nigeri…
      WDL
      •0•2•0•0•Updated Mar 17, 2026Mar 17, 2026

    • HSPW-V3

      Public
      JavaScript
      •1•0•3•0•Updated Mar 17, 2026Mar 17, 2026

    • Jillion

      Public
      Jillion
      Java
      •
      GNU Lesser General Public License v2.1
      •4•2•0•1•Updated Mar 2, 2026Mar 2, 2026

    • FRmatch

      Public
      Cell type matching in single-cell RNA-sequencing data using FR-Match
      rscrna-seqsingle-cell
      rscrna-seqsingle-cellscrna-seq-analysiscell-type-matchingcell-types
      R
      •
      MIT License
      •2•19•1•0•Updated Feb 16, 2026Feb 16, 2026

    • Phage_Finder

      Public
      Phage_Finder was developed at The Institute for Genomic Research (TIGR) by Dr. Derrick E. Fouts as a heuristic computer program written in PERL to identify prop…
      bioinformatics-pipelineannotation-toolgenomic-data-analysis
      bioinformatics-pipelineannotation-toolgenomic-data-analysisprophage-predictionbacteriophages
      Pep8
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 3, 2025Oct 3, 2025

    • VIGOR4

      Public
      VIGOR4
      Java
      •
      GNU General Public License v3.0
      •13•21•4•7•Updated Aug 15, 2025Aug 15, 2025

    • VIGOR_DB

      Public
      VIGOR_DB
      Python
      •4•4•1•0•Updated Aug 15, 2025Aug 15, 2025

    • LinearDisplay

      Public
      LinearDisplay.pl is a program that generates publication quality linear maps of user-defined genetic features (e.g., ORFs, promoters, transcriptional terminator…
      Perl
      •
      GNU General Public License v3.0
      •3•9•0•0•Updated Apr 2, 2025Apr 2, 2025

    • DAFi-gating

      Public
      HTML
      •
      MIT License
      •3•6•0•0•Updated Jun 24, 2024Jun 24, 2024

    • celligrate

      Public
      Software suite for marker gene identification and cell type integration from single cell RNA-sequencing data
      machine-learningdata-integrationsingle-cell
      machine-learningdata-integrationsingle-cellmarker-genesscrna-seq-analysiscell-types
      HTML
      •
      MIT License
      •0•3•1•0•Updated Jun 7, 2024Jun 7, 2024

    • PanGenomePipeline

      Public
      PanGenomePipeline
      Perl
      •
      GNU General Public License v2.0
      •9•16•7•0•Updated Apr 10, 2024Apr 10, 2024

    • PanACEA

      Public
      PanACEA is a suite of PERL scripts that allows for visualization of prokaryotic pan-chromosomes, including core and variable regions.
      Perl
      •
      GNU General Public License v2.0
      •4•7•1•0•Updated Mar 20, 2024Mar 20, 2024

    • GGRaSP

      Public
      R
      •
      GNU General Public License v2.0
      •4•7•1•0•Updated Feb 15, 2024Feb 15, 2024

    • LOCUST

      Public
      LOCUST (LOcus CUstom Sequence Typer) is a custom sequence locus typer tool for classifying microbial genomes. It provides a fully automated opportunity to custo…
      Perl
      •
      GNU General Public License v2.0
      •2•1•1•0•Updated Jan 18, 2024Jan 18, 2024

    • veba

      Public
      A modular end-to-end suite for in silico recovery, clustering, and analysis of prokaryotic, microeukaryotic, and viral genomes from metagenomes
      Python
      •
      GNU Affero General Public License v3.0
      •11•0•0•0•Updated Oct 30, 2023Oct 30, 2023

    • OMeta-Public

      Public
      OMeta-Public
      JavaScript
      •9•8•0•4•Updated Apr 18, 2023Apr 18, 2023

    • celligrate-data

      Public
      MIT License
      •0•0•0•0•Updated Dec 20, 2022Dec 20, 2022

    • MPress

      Public
      MPress ( Microbiome power estimation with sampling and simulation)
      R
      •
      GNU General Public License v2.0
      •0•1•1•0•Updated Dec 14, 2022Dec 14, 2022

    • Flowgate_GUI

      Public
      HTML
      •0•0•3•1•Updated Oct 28, 2022Oct 28, 2022

    • pathseq2taxsummary

      Public
      Perl
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated Jan 5, 2021Jan 5, 2021

    • Jillion-validation

      Public
      Bean validation for jillion
      Java
      •0•0•0•1•Updated Oct 13, 2020Oct 13, 2020

    • CDC

      Public
      CDC
      PHP
      •0•0•0•0•Updated May 9, 2019May 9, 2019

    • GUID

      Public
      GUID
      Java
      •0•1•0•0•Updated Feb 1, 2019Feb 1, 2019

    • Meta-CATS

      Public
      Metadata-driven Comparative Analysis Tool for Sequences (meta-CATS): an Automated Process for Identifying Significant Sequence Variations that Correlate with Vi…
      Perl
      •1•1•0•0•Updated Nov 20, 2018Nov 20, 2018

    • HumanSubtractionDB1

      Public
      A host subtraction database for virus discovery in human cell line sequencing data
      Shell
      •0•0•0•0•Updated Jan 12, 2018Jan 12, 2018

    • HostSubtractionDB

      Public
      Shell
      •
      GNU General Public License v3.0
      •0•0•1•0•Updated Jan 11, 2018Jan 11, 2018

    • onelogin-php-sdk

      Public
      PHP
      •
      MIT License
      •18•0•0•0•Updated Jan 9, 2018Jan 9, 2018

    • SMURF

      Public
      SMURF
      0•0•0•0•Updated May 18, 2017May 18, 2017
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