JRaviLab repositories

37 repositories

amRml
Public
Houses the AMR ML and post-ML package
machine-learning antimicrobial-resistance
machine-learning antimicrobial-resistance
R
•
Other
•1•0•5•7•Updated Oct 22, 2026Oct 22, 2026
amRdata
Public
Houses the AMR data package
antimicrobial-resistance
antimicrobial-resistance
R
•
Other
•0•0•13•6•Updated Oct 21, 2026Oct 21, 2026
b2ai-dashboard
Public
HTML
•
Other
•0•0•0•0•Updated Oct 16, 2026Oct 16, 2026
humanpredict
Public
Pipeline utilizing Txt2Onto 2 for host prediction (human/not human) from bacteria assembly metadata
Jupyter Notebook
•0•0•0•1•Updated Oct 13, 2026Oct 13, 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
•
Other
•2•3•0•0•Updated Oct 8, 2026Oct 8, 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•4•0•Updated Oct 5, 2026Oct 5, 2026
molevolvr2.0
Public
WIP new molevolvr app
web-app molecular-evolution phylogeny
web-app molecular-evolution phylogeny
TypeScript
•10•1•1•0•Updated Sep 25, 2026Sep 25, 2026
bvbrcGoldStd
Public
This repo consolidates gold (+ silver/bronze) standard BV-BRC metadata for host- and isolation-associated metadata cols
R
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Other
•1•0•0•2•Updated Sep 18, 2026Sep 18, 2026
coiCheckR
Public
R
•
MIT License
•0•0•0•1•Updated Sep 14, 2026Sep 14, 2026
amRviz
Public
Houses the AMR Shiny package
dashboard antimicrobial-resistance
dashboard antimicrobial-resistance
R
•
Other
•0•0•3•0•Updated Aug 11, 2026Aug 11, 2026
.github
Public
BSD 3-Clause "New" or "Revised" License
•1•0•0•1•Updated Jul 23, 2026Jul 23, 2026
cyano_adaptation
Public
Genotype-phenotype ML models for cyanobacterial adaptation
ml comparative-genomics molecular-evolution
ml comparative-genomics molecular-evolution cyanobacteria environmental-adaptation
R
•
BSD 2-Clause "Simplified" License
•0•0•7•1•Updated Apr 20, 2026Apr 20, 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
•
Creative Commons Zero v1.0 Universal
•3•0•0•0•Updated Apr 12, 2026Apr 12, 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
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
•
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
•
MIT License
•4•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
iprscanr
Public
R package for accessing InterProScan5 API
iprscan domain-architecture
iprscan domain-architecture
HTML
•
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
•
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
•
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
•
MIT License
•0•0•0•0•Updated Aug 3, 2022Aug 3, 2022

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JRaviLab

All

37 repositories

amRml

amRdata

b2ai-dashboard

humanpredict

amR

integrative-drugrep-tb

molevolvr2.0

bvbrcGoldStd

coiCheckR

amRviz

.github

cyano_adaptation

lab_docs

jravilab.github.io

MolEvolvR

bacteria-archaea-traits

compbio-gists

bugphyzz

taxPPro

cheatsheets

start-bycc

iprscanr

wall-of-software

papers

2023-mlhd

2023-glbio

R_intro

meetup-presentations

workshop-shell-git

dcia_evolution

Repositories list

37 repositories