JRaviLab

All

32 repositories

amRdata
Public
Houses the AMR data package
antimicrobial-resistance
antimicrobial-resistance
R
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Other
•0•0•9•5•Updated Apr 21, 2026Apr 21, 2026
molevolvr2.0
Public
WIP new molevolvr app
web-app molecular-evolution phylogeny
web-app molecular-evolution phylogeny
TypeScript
•10•1•1•0•Updated Apr 17, 2026Apr 17, 2026
amRml
Public
Houses the AMR ML and post-ML package
machine-learning antimicrobial-resistance
machine-learning antimicrobial-resistance
R
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Other
•0•0•1•7•Updated Apr 15, 2026Apr 15, 2026
integrative-drugrep-tb
Public
Codebase for 'Integrative transcriptome-based drug repurposing in tuberculosis'
computational-biology drug-repurposing transcriptomics
computational-biology drug-repurposing transcriptomics tuberculosis infectious-diseases connectivity-map host-response
Jupyter Notebook
•
MIT License
•0•0•16•0•Updated Apr 14, 2026Apr 14, 2026
lab_docs
Public
Documents related to Lab setup, onboarding, offboarding, resources, and such...
onboarding compbio lab-setup
onboarding compbio lab-setup offboarding lab-docs lab-resources cu-anschutz
R
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Creative Commons Zero v1.0 Universal
•3•0•0•0•Updated Apr 12, 2026Apr 12, 2026
amRshiny
Public
Houses the AMR Shiny package
dashboard antimicrobial-resistance
dashboard antimicrobial-resistance
R
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Other
•0•0•1•2•Updated Apr 10, 2026Apr 10, 2026
jravilab.github.io
Public
Janani Ravi's Research Group
computational-biology drug-repurposing comparative-genomics
computational-biology drug-repurposing comparative-genomics molecular-evolution phylogeny infectious-diseases research-group host-pathogen
HTML
•5•1•0•0•Updated Mar 17, 2026Mar 17, 2026
amR
Public
amR package suite: 1) amRdata, 2) amRml, 3) amRshiny
machine-learning dashboard amr
machine-learning dashboard amr r-package antimicrobial-resistance bacterial-genomics
R
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Other
•1•1•0•1•Updated Jan 22, 2026Jan 22, 2026
MolEvolvR
Public
An R Package for characterizing proteins using molecular evolution and phylogeny
r-package molecular-evolution phylogeny
r-package molecular-evolution phylogeny protein-families
R
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Other
•14•7•32•12•Updated Dec 19, 2025Dec 19, 2025
bacteria-archaea-traits
Public
A synthesis of bacterial and archaeal phenotypic trait data | forked from bacteria-archaea-traits | Madin 2020
R
•12•0•0•1•Updated Dec 18, 2025Dec 18, 2025
compbio-gists
Public
Computational Biology & Bioinformatics Resources
shell data-science bioinformatics
shell data-science bioinformatics r computational-biology comparative-genomics gists molecular-evolution transcriptomics phylogeny
Shell
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MIT License
•5•16•0•0•Updated Sep 9, 2025Sep 9, 2025
bugphyzz
Public
Harmonized annotation of microbial physiology
R
•6•0•0•0•Updated Nov 22, 2024Nov 22, 2024
taxPPro
Public
R
•2•0•0•0•Updated Nov 22, 2024Nov 22, 2024
cheatsheets
Public
Compilation of R, Unix, Vi, Git, MD cheatsheets & more!
git vim markdown
git vim markdown r cheatsheets unix-shell
MIT License
•11•1•0•0•Updated Oct 16, 2024Oct 16, 2024
start-bycc
Public
Modeling the START transition in the budding yeast cell cycle
simulations dynamical-systems mathematical-modelling
simulations dynamical-systems mathematical-modelling ode-model cell-cycle
MIT License
•0•0•0•0•Updated Aug 4, 2024Aug 4, 2024
.github
Public
BSD 3-Clause "New" or "Revised" License
•1•0•0•1•Updated Jul 25, 2024Jul 25, 2024
iprscanr
Public
R package for accessing InterProScan5 API
iprscan domain-architecture
iprscan domain-architecture
HTML
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MIT License
•1•1•0•0•Updated Jun 29, 2024Jun 29, 2024
wall-of-software
Public
A list of tools, packages, workflows, resources, and other software developed at or in collaboration with DBMI
HTML
•13•0•0•0•Updated Mar 5, 2024Mar 5, 2024
papers
Public
computational-biology molecular-evolution tuberculosis
computational-biology molecular-evolution tuberculosis host-pathogen
MIT License
•1•1•0•0•Updated Jan 4, 2024Jan 4, 2024
2023-mlhd
Public
Companion repo to Microbial genomics & ML workshop @MLHD2023
HTML
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MIT License
•4•0•0•0•Updated Aug 2, 2023Aug 2, 2023
2023-glbio
Public
MolEvolvR BTS: When and how to build a web-app and software package? | companion repository for the half-day workshop at GLBIO 2023
workshop r-shiny r-package
workshop r-shiny r-package iscb rocker r-website r-docker glbio
JavaScript
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MIT License
•1•1•0•0•Updated May 16, 2023May 16, 2023
R_intro
Public
Introducing non-coders to R
HTML
•
MIT License
•2•0•0•0•Updated Mar 21, 2023Mar 21, 2023
meetup-presentations
Public
R-Ladies East Lansing meetup presentations, resources, photos & such!
data-science workshops r
data-science workshops r statistics version-control data-visualization data-analysis r-ladies
HTML
•7•0•0•0•Updated Mar 20, 2023Mar 20, 2023
workshop-shell-git
Public
Files for git and shell workshop
R
•3•0•0•0•Updated Nov 28, 2022Nov 28, 2022
dcia_evolution
Public
Data and analysis for the DciA evolution manuscript | StallingsLab & JRaviLab
molecular-evolution phylogeny bacterial-genomes
molecular-evolution phylogeny bacterial-genomes dna-replication dcia
R
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MIT License
•0•0•0•0•Updated Aug 3, 2022Aug 3, 2022
inlp_listeria
Public
Companion repository to the Internalin P Listeria manuscript | HardyLab & JRaviLab
molecular-evolution phylogeny listeria
molecular-evolution phylogeny listeria internalins
MIT License
•0•1•0•0•Updated Jul 6, 2022Jul 6, 2022
connectivity_scores
Public
Review on 'Reconciling Multiple Connectivity Scores for Drug Repurposing.'
drug-repurposing transcriptomics disease-drug
drug-repurposing transcriptomics disease-drug connectivity-scores
HTML
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MIT License
•2•5•0•0•Updated Nov 24, 2021Nov 24, 2021
Expresto
Public
Data, results, and code accompanying the manuscript: "A Flexible, Interpretable, and Accurate Approach for Imputing the Expression of Unmeasured Genes" "
Jupyter Notebook
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Other
•4•0•0•0•Updated Nov 3, 2021Nov 3, 2021
phage_defense_avcd
Public
Companion repo to the paper titled: 'A broadly conserved deoxycytidine deaminase protects bacteria from phage infection,' by Severin*, Hsueh*, et al., 2021.
vibrio-cholerae phage-defense toxin-antitoxin
vibrio-cholerae phage-defense toxin-antitoxin pathogenicity-island thymineless-death
HTML
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MIT License
•0•0•0•0•Updated Aug 20, 2021Aug 20, 2021
webpage
Public
webpage evolution computational-biology
webpage evolution computational-biology drug-repurposing molecular-evolution research-group pathogenomics
MIT License
•0•0•0•0•Updated Apr 4, 2019Apr 4, 2019

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