Workflows
What is a Workflow?Filters
Portable genotype-free demultiplexing benchmarkign pipeline.
A portable pipeline for benchmarking genotype-free single-cell demultiplexing methods on simulated data.
The pipeline is designed to be generelisable to different datasets with arbitrary numbers of simulated mulitplexed samples. All software as part of pipeline is run through apptainer containers to ensure reproducibility and ease of use. The pipeline is designed to be run on a cluster with a slurm scheduler, but can be run locally ...
Type: Nextflow
Creators: Michael P Lynch, Leverages scripts developed by Weber et al (2021) DOI: https://doi.org/10.1093/gigascience/giab062
Submitter: Michael Lynch
EC-Earth3 workflow with wrappers running in MeluXina with Autosubmit 3, used to assess the effects of task aggregation on queueing times. Workflow configuration is based on the Auto-EC-Earth3's testing suite [1].
In order to reduce the size of the workflow, the /proj and /tmp directories have been deleted. Additionally, the experiment has been cleaned up with the Autosubmit cleanup command. Authorized users will be able to fetch the project files from the original remote source.
[1] Garcia Lopez, ...
EC-Earth3 workflow with wrappers running in MeluXina with Autosubmit 3, used to assess the effects of task aggregation on queueing times. Workflow configuration is based on the Auto-EC-Earth3's testing suite [1].
In order to reduce the size of the workflow, the /proj and /tmp directories have been deleted. Additionally, the experiment has been cleaned up with the Autosubmit cleanup command. Authorized users will be able to fetch the project files from the original remote source.
[1] Garcia Lopez, ...
EC-Earth3 workflow with wrappers running in MareNostrum 5 with Autosubmit 3, used to assess the effects of task aggregation on queueing times. Workflow configuration is based on the Auto-EC-Earth3's testing suite [1].
In order to reduce the size of the workflow, the /proj and /tmp directories have been deleted. Additionally, the experiment has been cleaned up with the Autosubmit cleanup command. Authorized users will be able to fetch the project files from the original remote source.
[1] Garcia ...
EC-Earth3 workflow with wrappers running in MareNostrum 5 with Autosubmit 3, used to assess the effects of task aggregation on queueing times. Workflow configuration is based on the Auto-EC-Earth3's testing suite [1].
In order to reduce the size of the workflow, the /proj and /tmp directories have been deleted. Additionally, the experiment has been cleaned up with the Autosubmit cleanup command. Authorized users will be able to fetch the project files from the original remote source.
[1] Garcia ...
EC-Earth3 workflow with wrappers running in MareNostrum 4 with Autosubmit 3, used to assess the effects of task aggregation on queueing times. Workflow configuration is based on the Auto-EC-Earth3's testing suite [1].
In order to reduce the size of the workflow, the /proj and /tmp directories have been deleted. Additionally, the experiment has been cleaned up with the Autosubmit cleanup command. Authorized users will be able to fetch the project files from the original remote source.
[1] Garcia ...
EC-Earth3 workflow with wrappers running in MareNostrum 4 with Autosubmit 3, used to assess the effects of task aggregation on queueing times. Workflow configuration is based on the Auto-EC-Earth3's testing suite [1].
In order to reduce the size of the workflow, the /proj and /tmp directories have been deleted. Additionally, the experiment has been cleaned up with the Autosubmit cleanup command. Authorized users will be able to fetch the project files from the original remote source.
[1] Garcia ...
Generate annotated gb for fragments and add them to DB
CWL + RO-Crate Workflow Descriptions
This repository stores computational workflows described using the Common Workflow Language (CWL) and enriched with metadata using Research Object Crate (RO-Crate) conforming to the Workflow Run RO-Crate profile.
Each workflow is contained in its own directory (e.g., WF5201
, WF6101
, ...). Inside each workflow directory you will typically find at least:
- The CWL workflow definition (with the same name as the directory, e.g.,
WF5201.cwl
). ...
This repository contains a Common Workflow Language (CWL) and Ro-Crate metadata definition for DTC-T1 workflow 6101, which is designed for providing tsunami impact forecasting following a tsunamigenic earthquake event, based on a probabilistic approach. The workflow integrates real-time earthquake data, runs HPC simulations, and generates tsunami hazard maps.
The main CWL implementation is found in WF6101.cwl, together with ST610106 and ST610109 describing complex steps. The file mini-ST610106.cwl ...