Explore projects

Snakemake enabled pipeline for smallRNA-Seq identification

mapping and variant calling following GATK Best Practices for Germline Variant Discovery.

MUSTA: end-to-end pipeline to detect, classify and interpret mutations in cancer

Docker image of PBEST, used to screen COVID-19 samples via group testing, as described in the manuscript "Efficient high throughput SARS-CoV-2 testing to detect asymptomatic carriers", by Shental et al.

SOLIDA is command-line solution that facilitate the reproducibility and portability of NGS pipelines. It can easily organize the deployment, the data management and the execution of a Snakemake based workflow.

MUSTA: a modular pipeline to detect, classify and interpret mutations in cancer

A repository with test data for DNA analysis pipelines

Reproducible Snakemake pipeline for RNA-seq preprocessing, transcript quantification, and quality assessment.

Standalone RNA-seq differential expression module for processing transcript quantifications using tximport and DESeq2.