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    22 repositories

    • granny

      Public
      Python
      •
      GNU General Public License v3.0
      •5•8•21•1•Updated Apr 27, 2026Apr 27, 2026

    • AnnoTater

      Public
      Functional Annotation of Gene Lists
      Python
      •
      MIT License
      •5•3•6•0•Updated Dec 23, 2025Dec 23, 2025

    • KINC

      Public
      Knowledge Independent Network Construction
      C++
      •
      MIT License
      •4•12•25•0•Updated Dec 23, 2025Dec 23, 2025

    • ACE

      Public
      Accelerated Computational Engine (ACE) is a GPU-enabled framework to simplify creation of GPU-capable applications
      C++
      •
      GNU General Public License v2.0
      •1•1•4•1•Updated Nov 21, 2025Nov 21, 2025

    • FUNC-E

      Public
      FUNC-E performs functional enrichment of gene lists. It follows a similar approach to that of DAVID
      bioinformaticsfunctional-enrichment-analysis
      bioinformaticsfunctional-enrichment-analysis
      Python
      •
      GNU General Public License v3.0
      •4•8•4•0•Updated Oct 20, 2025Oct 20, 2025

    • GEMmaker

      Public
      A workflow for construction of Gene Expression count Matrices (GEMs). Useful for Differential Gene Expression (DGE) analysis and Gene Co-Expression Network (GCN…
      Nextflow
      •
      MIT License
      •17•37•13•1•Updated Nov 25, 2024Nov 25, 2024

    • configs

      Public
      Config files used to define parameters specific to compute environments at different Institutions
      Nextflow
      •
      MIT License
      •356•0•0•0•Updated May 4, 2022May 4, 2022

    • pynome-nf

      Public
      Nextflow implementation of Pynome for retrieval and parallel indexing of public whole genomes.
      Nextflow
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Apr 28, 2022Apr 28, 2022

    • pynome

      Public
      Genome collection script for the SciDAS project.
      Python
      •
      GNU General Public License v3.0
      •0•0•1•0•Updated Apr 28, 2022Apr 28, 2022

    • KINC-nf

      Public
      Nextflow pipeline for KINC
      dockernextflow
      dockernextflow
      Nextflow
      •1•1•2•0•Updated Feb 14, 2022Feb 14, 2022

    • kube-runner

      Public
      A tool for running bioinformatics workflows on a Kubernetes cluster
      kubernetesnextflow
      kubernetesnextflow
      Shell
      •4•10•2•0•Updated Feb 2, 2022Feb 2, 2022

    • awesome-feltus

      Public
      A repository for how to be awesome in the Feltus lab
      0•0•3•0•Updated Dec 3, 2021Dec 3, 2021

    • transcript_corral

      Public
      Nextflow
      •
      Other
      •1•1•3•0•Updated Dec 2, 2021Dec 2, 2021

    • KINC.R

      Public
      Supplemental R package for KINC
      R
      •3•2•4•0•Updated Nov 8, 2021Nov 8, 2021

    • GEMprep

      Public
      Python
      •
      GNU General Public License v3.0
      •2•4•2•1•Updated Sep 29, 2021Sep 29, 2021

    • gene-oracle

      Public
      Feature extraction algorithm for genomic data
      machine-learningbioinformaticsgene
      machine-learningbioinformaticsgenerna-seqdeep-learninggenetic-algorithmdataset
      Python
      •
      MIT License
      •0•15•5•0•Updated Sep 28, 2021Sep 28, 2021

    • GSForge

      Public archive
      A gene (feature) selection toolset for gene expression matrix (GEM) data.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•3•5•0•Updated Sep 1, 2021Sep 1, 2021

    • GSForgeDev

      Public
      A placeholder repository for the dev version of the docs website.
      HTML
      •0•0•0•0•Updated Aug 18, 2021Aug 18, 2021

    • GEM_Smasher

      Public
      A gene expression matrix exploration tool set.
      Jupyter Notebook
      •0•1•0•0•Updated Apr 2, 2019Apr 2, 2019

    • irods-docker

      Public
      Docker / Singularity image for using the iRODS client commands on HPC systems
      Shell
      •0•0•1•0•Updated Feb 20, 2019Feb 20, 2019

    • BioDepVis

      Public
      C++
      •0•0•9•0•Updated Feb 5, 2019Feb 5, 2019

    • KINC-v1-Singularity

      Public
      Instructions for running KINC v1.0 using a Singularity Image
      GNU General Public License v3.0
      •0•0•1•0•Updated Mar 1, 2018Mar 1, 2018
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