Workflows

What is a Workflow?
556 Workflows visible to you, out of a total of 600

Structural and functional genome annotation with Funannotate

Type: Galaxy

Creator: Anthony Bretaudeau

Submitter: Paul De Geest

Masking repeats in a genome using RepeatMasker

Type: Galaxy

Creator: Anthony Bretaudeau

Submitter: Paul De Geest

Assemble long reads with Flye, then view assembly statistics and assembly graph

Type: Galaxy

Creator: Anna Syme

Submitter: WorkflowHub Bot

Name: Random Forest Contact Person: support-compss@bsc.es Access Level: public License Agreement: Apache2 Platform: COMPSs Machine: MareNostrum4 This is an example of Random Forest algorithm from dislib. To show the usage, the code generates a synthetical input matrix. The results are printed by screen. This application used dislib-0.9.0

EBP-Nor Genome Assembly pipeline

This repository contains the EBP-Nor genome assembly pipeline. This pipeline is implemented in snakemake. This pipeline is developed to create haplotype-resolved genome assemblies from PacBio HiFi reads and HiC reads, and is primarly designed for diploid eukaryotic organisms. The pipeline is designed to work on a linux cluster with slurm as workload manager.

Requirements & Setup

Some software need to be configured/installed before the pipeline can be run ...

Type: Snakemake

Creators: None

Submitter: Bram Danneels

No description specified

Type: Galaxy

Creator: VGP, Galaxy

Submitter: WorkflowHub Bot

Work-in-progress

workflow License: Apache-2.0 DOI

Logo

Bactria: BarCode TRee Inference

...

Type: Snakemake

Creators: None

Submitter: Rutger Vos

Stable

CLAWS (CNAG's Long-read Assembly Workflow in Snakemake)

Snakemake Pipeline used for de novo genome assembly @CNAG. It has been developed for Snakemake v6.0.5.

It accepts Oxford Nanopore Technologies (ONT) reads, PacBio HFi reads, illumina paired-end data, illumina 10X data and Hi-C reads. It does the preprocessing of the reads, assembly, polishing, purge_dups, scaffodling and different evaluation steps. By default it will preprocess the reads, run Flye + Hypo + purge_dups + yahs and evaluate ...

Type: Snakemake

Creators: Jessica Gomez-Garrido, Fernando Cruz (CNAG), Francisco Camara (CNAG), Tyler Alioto (CNAG)

Submitter: Jessica Gomez-Garrido

DOI: 10.48546/workflowhub.workflow.567.2

Stable

 

Welcome to the pipesnake. Let's get started.


Introduction

pipesnake is a bioinformatics best-practice analysis pipeline for phylogenomic reconstruction starting from short-read 'second-generation' sequencing data.

The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It uses Docker/Singularity ...

Type: Nextflow

Creators: Ziad Al-Bkhetan, Ian Brennan

Submitter: Ziad Al-Bkhetan

Workflow for Creating a large disease network from various datasets and databases for IBM, and applying the active subnetwork identification method MOGAMUN.

Type: Common Workflow Language

Creators: Daphne Wijnbergen, Mridul Johari

Submitter: Daphne Wijnbergen

DOI: 10.48546/workflowhub.workflow.681.7

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