Katarzyna Wreczycka's starred repositories
flexynesis
A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible manner
awesome_spatial_omics
tools and notes for spatial omics
scRNAseq-analysis-notes
scRNAseq analysis notes from Ming Tang
rworkflows
Continuous integration for R packages. 🔀 Automates testing ✅, documentation website building 📦, & containerised deployment 🐳.
ucsc-hub-js
read and write UCSC track and assembly hub files in node or the browser
gimmemotifs
Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed installation instructions and usage examples.
motifcounter
R package for identifying motif matches and motif enrichment in DNA sequences
DAMEfinder
Finds DAMEs - Differential Allelicly MEthylated regions
HOT-or-not-examining-the-basis-of-high-occupancy-target-regions
HOT regions paper
TrimGalore
A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data
enhancer-snakemake-demo
Demos a Snakemake workflow to classify enhancer regions based on publicly available chromatin marks.
genomation
R package for genomic feature analysis and visualization