Workflows

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94 Workflows visible to you, out of a total of 126
Stable

nfcore/viralrecon is a bioinformatics analysis pipeline used to perform assembly and intrahost/low-frequency variant calling for viral samples. The pipeline currently supports metagenomics and amplicon sequencing data derived from the Illumina sequencing platform. This pipeline is a re-implementation of the SARSCov2consensus-nf and SARSCov2assembly-nf pipelines initially developed by Sarai Varona and Sara Monzon from BU-ISCIII. Porting both of these pipelines to nf-core was an international ...

Type: Nextflow

Creator: Alexander Peltzer and Alison Meynert and Edgar Garriga Nogales and Erik Garrison and Gisela Gabernet and Harshil Patel and Joao Curado and Jose Espinosa-Carrasco and Katrin Sameith and Marta Pozuelo and Maxime Garcia and Michael Heuer and Phil Ewels and Simon Heumos and Stephen Kelly and Thanh Le Viet

Submitter: Hervé Ménager

Stable

nf-core/vipr is a bioinformatics best-practice analysis pipeline for assembly and intrahost / low-frequency variant calling for viral samples. The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It comes with docker / singularity containers making installation trivial and results highly reproducible. Pipeline Steps

Step Main program/s

Trimming, combining of read-pairs per sample and QC Skewer, FastQC

Decontamination ...

Type: Nextflow

Creator: Andreas Wilm, October SESSIONS, Paola Florez DE SESSIONS, ZHU Yuan, Shuzhen SIM, CHU Wenhan Collins

Submitter: Laura Rodriguez-Navas

No description specified

Type: Unrecognized workflow type

Creators: None

Submitter: Stian Soiland-Reyes

Work-in-progress

BioExcel building blocks workflow used in the COVID-19 research

Type: Unrecognized workflow type

Creators: None

Submitter: Stian Soiland-Reyes

No description specified

Type: Unrecognized workflow type

Creator: Stian Soiland-Reyes

Submitter: Stian Soiland-Reyes

No description specified

Type: Unrecognized workflow type

Creator: Stian Soiland-Reyes

Submitter: Stian Soiland-Reyes

No description specified

Type: Unrecognized workflow type

Creator: Stian Soiland-Reyes

Submitter: Stian Soiland-Reyes

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