WtP: Phage identification via nextflow and docker or singularity

RNA-Seq pipeline

A simple fastp-MultiQC nextflow pipeline

From QC to summary statistics

This repo contains code that is relevant for the analysis (Mapping, BAM qc, Variant Calling, Filtering etc...) of IGSR data

Chip-Seq pipeline

Automated virus amplicon sequencing analysis program integrated with Nextflow pipeline manager.

Workflow for prOteome and tRanScriptome functiOnal aNnotation. CAUTION : project has moved to Gitlab.

Atac-Seq pipeline

Tools for processing HIC data.

This workflow for molecular dynamics simulation of proteins

A nextflow pipeline for performing bacterial RNA-Seq data analysis.

cronology is an automated workflow for Cronobacter whole genome sequence assembly, subtyping and isolate clustering based on NCBI Pathogen Detection Project for Cronobacter.

Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.

A repository with usage examples of various pipeline and workflow orchestration tools

A Genome Annotation workflow for Eukaryotes

Demultiplexing pipeline for sequencing data

This is a demo about how to develop and deploy a pipeline using nextflow, scif, a container (Singularity and Docker) and its posterior deployment.

Advanced Training in Bioinformatics Workflows: Beginner - Intermediate level Bioinformaticians working with next-generation sequencing data in East-Africa.

modules for processing and analyzing single cell data using Nextflow