RepeatMasker
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Run on GalaxyMasking repeats in a genome using RepeatMasker
Associated Tutorial
This workflows is part of the tutorial Masking repeats with RepeatMasker, available in the GTN
Features
- Includes Galaxy Workflow Tests
Thanks to...
Workflow Author(s): Anthony Bretaudeau
Tutorial Author(s): Anthony Bretaudeau, Alexandre Cormier, Laura Leroi, Erwan Corre, Stéphanie Robin, Jonathan Kreplak
Tutorial Contributor(s): Helena Rasche, Cristóbal Gallardo, Anthony Bretaudeau, Laura Leroi, Björn Grüning, Jonathan Kreplak, Saskia Hiltemann, Stéphanie Robin, Simon Bray, Bérénice Batut
Grants(s): Gallantries: Bridging Training Communities in Life Science, Environment and Health, EuroScienceGateway
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| Raw genome sequence | #main/Raw genome sequence | The raw (not masked) genome sequence in fasta format |
|
Steps
| ID | Name | Description |
|---|---|---|
| 1 | Red | toolshed.g2.bx.psu.edu/repos/iuc/red/red/2018.09.10+galaxy1 |
| 2 | RepeatMasker | toolshed.g2.bx.psu.edu/repos/bgruening/repeat_masker/repeatmasker_wrapper/4.1.5+galaxy0 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| RepeatMasker masked sequence on input dataset(s) | #main/RepeatMasker masked sequence on input dataset(s) | n/a |
|
| RepeatMasker output log on input dataset(s) | #main/RepeatMasker output log on input dataset(s) | n/a |
|
| RepeatMasker repeat catalogue on input dataset(s) | #main/RepeatMasker repeat catalogue on input dataset(s) | n/a |
|
| RepeatMasker repeat statistics on input dataset(s) | #main/RepeatMasker repeat statistics on input dataset(s) | n/a |
|
| _anonymous_output_1 | #main/_anonymous_output_1 | n/a |
|
| _anonymous_output_2 | #main/_anonymous_output_2 | n/a |
|
Version History
Version 2 (latest) Created 28th Jul 2025 at 13:09 by Armin Dadras
Updated the authors list.
Frozen
Version-2e8da6cc
1.0 (earliest) Created 2nd Jun 2025 at 10:57 by GTN Bot
Updated the authors section.
Frozen
1.0
e8da6cc
Creators and Submitter
Views: 1453 Downloads: 272 Runs: 0
Created: 2nd Jun 2025 at 10:57
Last updated: 28th Jul 2025 at 10:57
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Teams: Galaxy Training Network
Organizations: Galaxy
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EuroScienceGateway will leverage a distributed computing network across 13 European countries, accessible via 6 national, user-friendly web portals, facilitating access to compute and storage infrastructures across Europe as well as to data, tools, workflows and services that can be customized to suit researchers’ needs.EuroScienceGateway will deliver a robust, scalable, seamlessly integrated open infrastructure for data-driven research, contributing an innovative and customizable service for ...
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Collection of workflows used or developed by the EuroScienceGateway project.
Maintainers: Stian Soiland-Reyes, Paul De Geest, Eli Chadwick, Armin Dadras
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