Repositories list

• molevolvr2.0

  Public
  WIP new molevolvr app

  TypeScript

  •10•0•6•3•Updated Nov 15, 2024Nov 15, 2024

• MolEvolvR

  Public
  An R Package for characterizing proteins using molecular evolution and phylogeny

  r-packagemolecular-evolutionphylogeny+ 1protein-families

  R

  •

  Other

  •16•4•20•14•Updated Nov 1, 2024Nov 1, 2024

• cheatsheets

  Public
  Compilation of R, Unix, Vi, Git, MD cheatsheets & more!

  gitvimmarkdown+ 3rcheatsheetsunix-shell

  MIT License

  •11•1•0•0•Updated Oct 16, 2024Oct 16, 2024

• jravilab.github.io

  Public
  Janani Ravi's Research Group

  computational-biologydrug-repurposingcomparative-genomics+ 5molecular-evolutionphylogenyinfectious-diseasesresearch-grouphost-pathogen

  HTML

  •4•1•0•0•Updated Oct 1, 2024Oct 1, 2024

• start-bycc

  Public
  Modeling the START transition in the budding yeast cell cycle

  simulationsdynamical-systemsmathematical-modelling+ 2ode-modelcell-cycle

  MIT License

  •0•0•0•0•Updated Aug 4, 2024Aug 4, 2024

• .github

  Public
  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Jul 25, 2024Jul 25, 2024

• iprscanr

  Public
  R package for accessing InterProScan5 API

  iprscandomain-architecture

  HTML

  •

  MIT License

  •1•1•0•0•Updated Jun 29, 2024Jun 29, 2024

• lab_docs

  Public
  Documents related to Lab setup, onboarding, offboarding, resources, and such...

  onboardingcompbiolab-setup+ 4offboardinglab-docslab-resourcescu-anschutz

  R

  •

  Creative Commons Zero v1.0 Universal

  •2•0•0•1•Updated May 19, 2024May 19, 2024

• wall-of-software

  Public
  A list of tools, packages, workflows, resources, and other software developed at or in collaboration with DBMI

  HTML

  •7•0•0•0•Updated Mar 5, 2024Mar 5, 2024

• papers

  Public
  computational-biologymolecular-evolutiontuberculosis+ 1host-pathogen

  MIT License

  •1•1•0•0•Updated Jan 4, 2024Jan 4, 2024

• bacteria-archaea-traits

  Public
  A synthesis of bacterial and archaeal phenotypic trait data | forked from bacteria-archaea-traits | Madin 2020

  R

  •11•0•0•0•Updated Nov 14, 2023Nov 14, 2023

• 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

  r-shinyr-packageiscb+ 5rockerr-websiter-dockerglbioworkshop

  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-scienceworkshopsr+ 5statisticsversion-controldata-visualizationdata-analysisr-ladies

  HTML

  •7•0•0•0•Updated Mar 20, 2023Mar 20, 2023

• workshop-shell-git

  Public
  Files for git and shell workshop

  R

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

• dcia_evolution

  Public
  Data and analysis for the DciA evolution manuscript | StallingsLab & JRaviLab

  molecular-evolutionphylogenybacterial-genomes+ 2dna-replicationdcia

  R

  •

  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-evolutionphylogenylisteria+ 1internalins

  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-repurposingtranscriptomicsdisease-drug+ 1connectivity-scores

  HTML

  •

  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

  •

  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-choleraephage-defensetoxin-antitoxin+ 2pathogenicity-islandthymineless-death

  HTML

  •

  MIT License

  •0•0•0•0•Updated Aug 20, 2021Aug 20, 2021

• compbio-gists

  Public
  Shell

  •

  MIT License

  •3•0•0•0•Updated Apr 18, 2019Apr 18, 2019

• webpage

  Public
  webpagecomputational-biologydrug-repurposing+ 4molecular-evolutionresearch-grouppathogenomicsevolution

  MIT License

  •0•0•0•0•Updated Apr 4, 2019Apr 4, 2019

• readingpapers

  Public
  A guide to reading scientific papers

  93•0•0•0•Updated Nov 13, 2018Nov 13, 2018

• rpackages

  Public
  R package development - the Leek group way!

  286•0•0•0•Updated Jun 18, 2018Jun 18, 2018