Nextflow pipeline to detect and classify microbial reads in sequencing data from human samples.

A Nextflow pipeline demonstrating how to train graph neural networks for gene regulatory network reconstruction using DREAM5 data.

Bases2fastq-nf is a bioinformatics pipeline used to demultiplex the raw data produced by the Element AVITI™ System using the Bases2Fastq Software.

NeoFlow: a proteogenomics pipeline for neoantigen discovery

Flujos de trabajos desarrollados y automatizados en el Inmegen para el procesamiento de datos genómicos y transcriptómicos.

This page is reserved for NextFlow based Indell Calling Workflow (with Platypus) from DKFZ

Nextflow pipeline to assemble genomes from long reads.

Nextflow workflow for performing DIA proteomics

Nextflow pipeline for plasmodium SNP calling

RNA-seq for rare diseases pipeline using nextflow

A Nextflow pipeline to perform quality control of sequencing data.

A Nextflow pipeline to perform quality control, alignment, and quantification of RNA sequencing data.

A pipeline for comprehensive genomic analyses of Mycobacterium tuberculosis with a focus on clinical decision making as well as research

Assemble the viral genome and perform the associated quality control (QC). Start with raw reads and one pre-built reference database in standard format (see README.md).

A bioinformatics best-practice analysis pipeline for the analysis of shallow whole genome sequencing (sWGS) data for the identification of copy number alterations (CNAs).

nextflow RNAseq pipeline for GG02

Shortbread2 is a bioinformatics pipeline for identifying single nucleotide polymorphisms (SNPs) and insertions/deletions (indels) from High-Throughput Next Generation Sequencing (NGS) data.

A Nextflow pipeline to align and quantify Methylation (Bisulfite) sequencing data.

GBS Typer Pipeline in Nextflow