ttriche

bayesCC

Bayesian Consensus Clustering, packaged up from code by Eric F. Lock

chromophobe

a package to handle ChromHMM (http://compbio.mit.edu/ChromHMM/) and similar segmentation models in R

miser

convenience package for loading IDATs off of GEO (short for "sesamizer")

MakeAPackageWorkshop

Workshop: Intro to BioC Package Development

Rscripts

contents of my ~/.Rscripts folder, minus private ones with account numbers. Packaged up by Asif Zubair!

bifurcatoR

bifurcatoR package

NU_workshop

Northwestern QBio workshop notebooks

2024_06_20_tim_wfh

templated repo for a Carpentries workshop

awesome-data-insights-projects

bamSliceR

Slice and dice controlled-access BAMs for thousands of samples

bioc-rnaseq

Analysis and Interpretation of Bulk RNA-Seq Data using Bioconductor

Bioc2024PackageByTim

BiocHowTo

tim's fork of BiocHowTo

CICERO

CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.

EPI-clone

Vignettes to process data and generate figures for the EPI-clone paper

GEMLI

generative-ai-for-beginners

12 Lessons, Get Started Building with Generative AI 🔗 https://microsoft.github.io/generative-ai-for-beginners/

instructor-training

Instructor Training

js-pytorch

A JavaScript library like PyTorch, with GPU acceleration.

liftOverBedpe

A liftOver wrapper to accomodate BEDPE files

MethyLYZR

MethyLYZR: a Naïve Bayesian framework for rapid brain tumor classification from sparse epigenomic data

minichain

Long-read aligner to pangenome graphs

otherShinyBifurcatoR

another fork

PAMES

Tool to estimate purity of tumor samples exploiting DNA Methylation data

pkgrevdocs

Training Material for Community Reviewers

quarto-web

Quarto website

refinebioc

The bridge between refine.bio and Bioconductor

RegNMF

SCcaller-pipeline

clone of sccaller from Vijg lab

valiDrops