Only members of teams can create content.
Workflow Types
Core Workflow Types
| Title | Identifier | URL | # Workflows | Contributor | |
|---|---|---|---|---|---|
Snakemake |
https://doi.org/10.1093/bioinformatics/bts480 | https://snakemake.readthedocs.io | 45 | ||
Nextflow |
https://www.nextflow.io/ | https://www.nextflow.io/ | 145 | ||
KNIME |
https://www.knime.com/ | https://www.knime.com/ | 17 | ||
Galaxy |
https://galaxyproject.org/ | https://galaxyproject.org/ | 303 | ||
Common Workflow Language (CWL)
|
https://w3id.org/cwl/v1.0/ | https://www.commonwl.org/ | 84 |
User-added Workflow Types
| Title | Identifier | URL | # Workflows | Contributor | |
|---|---|---|---|---|---|
Rbbt (Ruby bioinformatics toolkit)
|
Not specified | https://github.com/mikisvaz/rbbt-util | 1 | Miguel Vazquez | |
|
Argo Workflow (Argo)
|
https://argoproj.github.io/workflows/ | https://argoproj.github.io/workflows/ | 1 | Daniel Bauer | |
Playbook Workflow Builder Workflow |
Not specified | https://playbook-workflow-builder.cloud | 9 | Daniel Clarke | |
|
Plug-in (Add-on)
|
Not specified | Not specified | 1 | Kieran Atkins | |
|
GIMP Image Annotator (GIÀ)
|
https://github.com/kieranatkins/gimp-image-annotator | Not specified | 0 | Kieran Atkins | |
|
PiFlow |
Not specified | https://github.com/cas-bigdatalab/piflow | 1 | Yaxuan Zhang | |
|
DVC |
Not specified | Not specified | 1 | Fabian Hausmann | |
Docker (Docker)
|
https://www.docker.com/ | https://www.docker.com/ | 17 | Genís Bayarri | |
|
Combine multi-wavelength workflows |
Not specified | Not specified | 0 | Volodymyr Savchenko | |
|
|
Not specified | Not specified | 0 | Rutger Vos | |
|
ONTViSc (ONT-based Viral Screening for Biosecurity)
|
Not specified | https://github.com/eresearchqut/ontvisc | 0 | Magdalena Antczak | |
|
Perl |
Not specified | https://www.perl.org/ | 1 | Anand Maurya | |
|
ARA (Automated Record Analysis)
|
Not specified | https://github.com/maurya-anand/ARA | 0 | Anand Maurya | |
|
Integrating several EU-RI datasets with focus on preclinical and discovery research bioimaging |
Not specified | Not specified | 0 | Elisabetta Spinazzola | |
Quarto Markdown (qmd)
|
Not specified | https://quarto.org/docs/authoring/markdown-basics.html | 1 | Stian Soiland-Reyes | |
|
Jupyter |
https://jupyter.org/ | https://jupyter.org/ | 38 | Douglas Lowe | |
|
Uniform Interface to Computing Resources (UNICORE)
|
Not specified | https://www.unicore.eu/ | 3 | Thomas Gruber | |
|
Pi |
Not specified | Not specified | 1 | Tina Tian | |
MGnify Taxonomic profiling pipeline (motus_pipeline)
|
Not specified | Not specified | 0 | Ekaterina Sakharova | |
Autosubmit (AS)
|
https://autosubmit.readthedocs.io/ | https://autosubmit.readthedocs.io/ | 2 | Bruno P. Kinoshita | |
BioCompute Object (BCO)
|
https://doi.org/10.1109/IEEESTD.2020.9094416 | https://biocomputeobject.org/ | 1 | Stian Soiland-Reyes | |
|
R markdown (RMD)
|
Not specified | Not specified | 6 | Adam Tofilski | |
|
R Markdown document (RMD)
|
Not specified | Not specified | 0 | Adam Tofilski | |
|
Workflow Description Language (WDL)
|
https://doi.org/10.7490/f1000research.1114631.1 | https://openwdl.org/ | 8 | Finn Bacall | |
Python |
https://www.python.org/ | https://www.python.org/ | 45 | Genís Bayarri | |
|
Bpipe |
Not specified | https://doc.bpipe.org | 5 | Sergi Sayols | |
|
Janis |
Not specified | https://janis.readthedocs.io/ | 1 | Richard Lupat | |
|
Scipion |
Not specified | http://scipion.i2pc.es/ | 7 | Stuart Owen | |
COMPSs |
http://compss.bsc.es/ | http://compss.bsc.es/ | 99 | Stian Soiland-Reyes | |
|
Shell Script |
Not specified | Not specified | 13 | Finn Bacall |
