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@MoseleyBioinformaticsLab Moseley Bioinformatics and Systems Biology Lab

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    50 repositories

    • recount3

      Public
      Python package providing API and CLI access to recount3
      Python
      •
      Other
      •0•3•0•0•Updated Sep 14, 2026Sep 14, 2026

    • LabSystemStatus

      Public
      Contains files describing the current status of lab computers and services.
      HTML
      •0•0•0•0•Updated Sep 14, 2026Sep 14, 2026

    • mwFileStatusWebsite

      Public
      Repository hosting the Metabolomics Workbench File Status Website. A Third party website containing file status and validation information for all publicly avai…
      HTML
      •
      BSD 3-Clause Clear License
      •0•4•0•0•Updated Sep 13, 2026Sep 13, 2026

    • kegg_pull

      Public
      Package that facilitates pulling database entries from KEGG via its REST API
      Python
      •
      Other
      •3•14•4•0•Updated Aug 12, 2026Aug 12, 2026

    • mwtab

      Public
      The mwtab package is a Python library that facilitates reading and writing files in mwTab format used by the Metabolomics Workbench for archival of Mass Spectro…
      pythonbioinformaticsmetabolomics
      pythonbioinformaticsmetabolomicsworkbenchmwtab
      Python
      •
      BSD 3-Clause Clear License
      •3•12•2•0•Updated Jul 28, 2026Jul 28, 2026

    • categoryCompare2

      Public
      Enables Gene Ontology (and other feature annotation) enrichment calculations and comparisons between feature sets.
      bioinformaticsgene-setsr
      bioinformaticsgene-setsrgene-expressionrstatsbioconductorgene-annotation
      R
      •
      Other
      •1•2•20•0•Updated Jul 24, 2026Jul 24, 2026

    • md_harmonize

      Public
      Python
      •
      Other
      •0•0•1•0•Updated Jul 24, 2026Jul 24, 2026

    • rc3helpers

      Public
      Small R package for working with custom recount3 projects
      R
      •
      Other
      •0•0•0•0•Updated Jul 22, 2026Jul 22, 2026

    • icikt

      Public
      Python
      •
      Other
      •0•2•0•0•Updated Jun 24, 2026Jun 24, 2026

    • visualizationQualityControl

      Public
      Visualization methods for omics dataset quality control
      visualizationbioinformaticsquality-control
      visualizationbioinformaticsquality-controlrcorrelation
      R
      •
      Other
      •5•11•10•0•Updated Jun 24, 2026Jun 24, 2026

    • MESSES

      Public
      MESSES (Metadata from Experimental SpreadSheets Extraction System) is a Python package that facilitates the conversion of tabular data into other formats.
      Python
      •
      Other
      •0•0•5•0•Updated Jun 23, 2026Jun 23, 2026

    • miagis

      Public
      Generate and validate GIS metadata.
      pythongis
      pythongis
      Python
      •
      Other
      •1•0•0•0•Updated Jun 23, 2026Jun 23, 2026

    • helsley.liverCarcinomaMultiomics

      Public
      Code and Data for An Integrated Multi-omic Analysis Reveals Novel Gene-Metabolite Relationships in Human Steatohepatitic Hepatocellular Carcinoma
      R
      •
      Creative Commons Attribution 4.0 International
      •0•1•0•0•Updated Apr 30, 2026Apr 30, 2026

    • ICIKendallTau

      Public
      Information-Content-Informed Kendall-tau in R
      rcorrelationmissingness
      rcorrelationmissingness
      R
      •
      Other
      •1•6•8•0•Updated Apr 15, 2026Apr 15, 2026

    • manuscript.ICIKendallTauMetabolomics

      Public
      ICI-Kt methodology using metabolomics data
      R
      •0•0•0•0•Updated Apr 10, 2026Apr 10, 2026

    • .github

      Public
      0•0•0•0•Updated Apr 3, 2026Apr 3, 2026

    • monorail-external

      Public
      examples to run monorail externally
      Shell
      •
      MIT License
      •8•0•0•0•Updated Feb 27, 2026Feb 27, 2026

    • smirfeTools

      Public
      R
      •
      Other
      •0•0•0•0•Updated Sep 26, 2025Sep 26, 2025

    • gpu_tracker

      Public
      Context manager and CLI that tracks the computational-resource-usage of a code block or shell command, particularly the GPU usage.
      Python
      •
      Other
      •1•6•4•0•Updated May 20, 2025May 20, 2025

    • ScanCentricPeakCharacterization

      Public
      R package for scan-centric, frequency based peak characterization of mass spectrometry
      R
      •
      Other
      •0•0•13•0•Updated Oct 18, 2024Oct 18, 2024

    • manuscript.ICIKendallTau

      Public
      correlationmissing-data
      correlationmissing-data
      R
      •
      Creative Commons Attribution 4.0 International
      •0•0•1•0•Updated Oct 14, 2024Oct 14, 2024

    • academic_tracker

      Public
      Academic Tracker is a package that can search PubMed, Crossref, ORCID, and Google Scholar for publications given a list of authors or publication citations.
      pythonpublications
      pythonpublications
      Python
      •
      Other
      •7•23•1•0•Updated Sep 4, 2024Sep 4, 2024

    • recount-unify

      Public
      next step after recount-pump in the monorail pipeline
      Shell
      •1•0•0•0•Updated Aug 9, 2024Aug 9, 2024

    • recount-pump

      Public
      HTML
      •2•0•0•0•Updated Aug 5, 2024Aug 5, 2024

    • conwell-manuscript.ChronicPancreatitisUrineMetabolomics

      Public
      R
      •0•0•1•0•Updated Jun 27, 2024Jun 27, 2024

    • moseleybioinformaticslab.r-universe.dev

      Public
      maintaining the information for r-universe
      0•0•0•0•Updated Apr 10, 2024Apr 10, 2024

    • pdb_eda

      Public
      A Python tool for parsing and analyzing electron density maps data available from the worldwide Protein Data Bank
      Python
      •
      Other
      •1•13•1•0•Updated Sep 28, 2023Sep 28, 2023

    • STRINGDatabaseManipulation

      Public
      R
      •
      Other
      •0•0•5•0•Updated Sep 28, 2023Sep 28, 2023

    • manuscript.subsamplingCorrelation

      Public
      how much of features / samples do we need to recreate full data correlations
      R
      •0•0•0•0•Updated Jul 3, 2023Jul 3, 2023

    • GOcats

      Public
      A tool for categorizing Gene Ontology into subgraphs of user-defined emergent concepts
      Python
      •
      Other
      •2•7•3•0•Updated Jun 16, 2023Jun 16, 2023
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