All Published Workflows
6 workflows that have been reviewed and published
a snakemake pipeline to process ChIP-seq files from GEO or in-house
a snakemake pipeline to process ChIP-seq files from GEO I have so many people asking me to process a public GEO ChIP-seq data...
Amplicon sequence processing workflow using QIIME 2 and Snakemake
Tourmaline is an amplicon sequence processing workflow for Illumina sequence data that uses QIIME 2 and the software pack...
A general purpose Snakemake workflow to perform selected unsupervised analyses and visualizations of high-dimensional data.
A general purpose Snakemake workflow to perform selected unsupervised analyses and visualizations of high-dimensional (no...
Epidemiological Data Subsampling Pipeline
subsampler A pipeline for subsampling genomic data based on epidemiological time series data. If you use this tool in a publi...
A snakemake for GTDB-tk
It uses GTDB-tk to taxonomically annotate your genomes and to build a tree. Run as follows:
dbdir="databases"
genome_dir="gen...
multiAffinity workflow
MultiAffinity enables the study of how gene dysregulation propagates on a multilayer network on a disease of interest, uncove...