js2264

HiCExperiment

Importing and manipulating Hi-C data in R

HiContacts

Analyzing Hi-C data in R with HiCExperiment objects

OHCA

Orchestrating Hi-C analysis with Bioconductor

tinyMapper

Versatile "quick'n'dirty" mapper for genome-wide assays (e.g. ChIP-seq, ATAC-seq, RNA-seq, ...)

Bioc2024tidyworkshop

Repository for the Bioc2024 workshop on manipulating genomic data the tidy way.

tidyCoverage

BiocBook

BiocBook.tidyomics

BiocBook

js2264.github.io

Personal website

metaTOR

Metagenomic binning based on Hi-C data

OMA

Orchestrating Microbiome Analysis

autobcl2fastq

Automatically fetch data from sequencer directory, process with with bcl2fastq and run some preliminary QCs

plyinteractions

bioconda-recipes

Conda recipes for the bioconda channel.

cuteDev

EnsemblGenomes

fastcluster

Fast hierarchical clustering routines for R and Python.

HiContactsData

HiContacts companion data package

js2264

metamlg

MicrobeGenomes

momics

nucFinder

rhdf5

Package providing an interface between HDF5 and R

Rsamtools

Binary alignment (BAM), FASTA, variant call (BCF), and tabix file import

rtracklayer

R interface to genome annotation files and the UCSC genome browser

rworkflows

Continuous integration for R packages. Automates testing, documentation website building, and containerised deployment.

S4Arrays

Foundation of array-like containers in Bioconductor

scRNAseq-workshop

Content of scRNAseq workshop

SparseArray

Efficient in-memory representation of multidimensional sparse arrays