Nextflow pipeline for analysis of direct RNA Nanopore reads

A collection of unexpected challenges and learnings with nextflow and nf-core.

TransPi – a comprehensive TRanscriptome ANalysiS PIpeline for de novo transcriptome assembly

NeoFlow: a proteogenomics pipeline for neoantigen discovery

A proof of concept daisy-chaining Nextflow workflows

A bioinformatics best-practice analysis pipeline for calling structural variants (SVs), copy number variants (CNVs) and repeat region expansions (RREs) from short DNA reads

Nextflow pipeline for genome annotation of protein-coding genes

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

Sanger Cellular Genetics single-cell ATAC-seq pipeline.

Flujos de trabajos desarrollados y automatizados en el Intituto Nacional de Medicina Genómica para el procesamiento de datos genómicos y transcriptómicos.

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

Bacterial Assembly and Antimicrobial Resistance Genes In NextFlow

Workflow for MAG quality assessment and taxonomical annotation.

Template for creating Nextflow DSL2 pipelines

Python library to execute batches of jobs using nextflow.

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

bacQC is a bioinformatics analysis pipeline for assessing the quality of bacterial isolate sequence data

Nextflow pipeline for extracting and counting clonal barcodes