A Custom Variant Calling Pipeline for Dengue WGS (BWA + GATK + Lofreq) using nextflow and docker
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Updated
Dec 9, 2017
A Custom Variant Calling Pipeline for Dengue WGS (BWA + GATK + Lofreq) using nextflow and docker
This is a demo about how to develop and deploy a pipeline using nextflow, scif, a container (Singularity and Docker) and its posterior deployment.
A directory structure to build a workspace for experiments.
Proof of concept of a RNA-Seq pipeline from reads to count matrix (including quality control) with Nextflow and additional example RNA-Seq analysis in R
Nextflow Scripts/Workflows for Bioinformatics
Simple Nextflow RNA-Seq pipeline
Nextflow resequencing pipeline with bwa-mem and freebayes
a nextflow pacbiohifi for the genome assembly from the pacbiohifi. It also includes supports for the visualization and genome assessment.
A lightweight introduction to NextFlow, a workflow description language and engine for (mainly) bioinformatics workflows. Leverages notebooks for easy teaching.
Workflow for human mitochondria analysis
Projet pour le hacktaton reproductible de l'ue ReproHackaton du master AMI2B 2021-2022
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