Repositories list

• granny

  Public
  Python

  •

  GNU General Public License v3.0

  •1•3•15•0•Updated Oct 1, 2024Oct 1, 2024

• 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) construction

  Nextflow

  •

  MIT License

  •16•33•11•0•Updated Jul 13, 2024Jul 13, 2024

• KINC

  Public
  Knowledge Independent Network Construction

  C++

  •

  MIT License

  •4•11•25•0•Updated May 23, 2024May 23, 2024

• FUNC-E

  Public
  FUNC-E performs functional enrichment of gene lists. It follows a similar approach to that of DAVID

  functional-enrichment-analysisbioinformatics

  Python

  •

  GNU General Public License v3.0

  •3•5•4•0•Updated Sep 26, 2023Sep 26, 2023

• EnTAPnf

  Public
  Functional Annotation of Gene Lists

  Nextflow

  •

  MIT License

  •4•3•6•0•Updated Nov 28, 2022Nov 28, 2022

• configs

  Public
  Config files used to define parameters specific to compute environments at different Institutions

  Nextflow

  •

  MIT License

  •265•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

  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

  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•3•2•1•Updated Sep 29, 2021Sep 29, 2021

• gene-oracle

  Public
  Feature extraction algorithm for genomic data

  machine-learningbioinformaticsrna-seq+ 4deep-learninggenetic-algorithmgenedataset

  Python

  •

  MIT License

  •0•13•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

• 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 Apr 28, 2020Apr 28, 2020

• 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