Workflows

What is a Workflow?
520 Workflows visible to you, out of a total of 551
Stable

sanger-tol/insdcdownload

GitHub Actions CI Status

Cite with Zenodo

Nextflow ...

Type: Nextflow

Creators: Matthieu Muffato, Priyanka Surana

Submitter: Matthieu Muffato

Stable

sanger-tol/readmapping

Cite with Zenodo

Nextflow run with conda [![run with ...

Type: Nextflow

Creator: Priyanka Surana

Submitter: Matthieu Muffato

Deprecated

A pipeline for mapping, calling, and annotation of SARS-CoV2 variants.

Type: Nextflow

Creator: Krisztian Papp

Submitter: Ross Thorne

Deprecated

A workflow for mapping and consensus generation of SARS-CoV2 whole genome amplicon nanopore data implemented in the Nextflow framework. Reads are mapped to a reference genome using Minimap2 after trimming the amplicon primers with a fixed length at both ends of the amplicons using Cutadapt. The consensus is called using Pysam based on a majority read support threshold per position of the Minimap2 alignment and positions with less than 30x coverage are masked using ‘N’.

Type: Nextflow

Creator: David F. Nieuwenhuijse, Alexey Sokolov

Submitter: Ross Thorne

Stable

covid-sequence-analysis-workflow

This is the official repository of the SARS-CoV-2 variant surveillance pipeline developed by Danish Technical University (DTU), Eotvos Lorand University (ELTE), EMBL-EBI, Erasmus Medical Center (EMC) under the Versatile Emerging infectious disease Observatory (VEO) project. The project consists of 20 European partners. It is funded by the European Commission.

The ...

Type: Nextflow

Creator: David Yuan

Submitter: David Yuan

DOI: 10.48546/workflowhub.workflow.664.1

Stable

Name: K-means Contact Person: support-compss@bsc.es Access Level: Public License Agreement: Apache2 Platform: COMPSs

Description

K-means clustering is a method of cluster analysis that aims to partition ''n'' points into ''k'' clusters in which each point belongs to the cluster with the nearest mean. It follows an iterative refinement strategy to find the centers of natural clusters in the data.

When executed with COMPSs, K-means first generates the input points by means of ...

Type: COMPSs

Creators: Jorge Ejarque, The Workflows and Distributed Computing Team (https://www.bsc.es/discover-bsc/organisation/scientific-structure/workflows-and-distributed-computing/)

Submitter: Raül Sirvent

DOI: 10.48546/workflowhub.workflow.663.1

Galaxy Workflow created on Galaxy-E european instance, ecology.usegalaxy.eu, related to the Galaxy training tutorial "OBIS marine indicators" .

This workflow allows to compute and visualize marine biodiversity indicators from OBIS data.

Type: Galaxy

Creators: Marie Jossé, Yvan Le Bras

Submitter: Yvan Le Bras

Stable

Galaxy Workflow created on Galaxy-E european instance, ecology.usegalaxy.eu, related to the Galaxy training tutorial "Champs blocs" .

This workflow allows to produce Visual Rollover Indicator and dissimilarity as diversity indices on boulder fields.

Type: Galaxy

Creators: Marie Jossé, Yvan Le Bras

Submitter: Yvan Le Bras

Galaxy Workflow created on Galaxy-E european instance, ecology.usegalaxy.eu, to analyze crowdsourcing results of the SPIPOLL hoverflies GAPARS European project activity on MMOS server.

Type: Galaxy

Creators: Yvan Le Bras, GAPARS Horizon 2020 European project

Submitter: Yvan Le Bras

Galaxy Workflow created on Galaxy-E european instance, ecology.usegalaxy.eu, related to the Galaxy training tutorial "Deep learning to predict animal behavior" .

This workflow allows to analyze animal behavior data through deep learning.

Type: Galaxy

Creators: None

Submitter: Yvan Le Bras

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