Gildas Le Corguillé

Affiliations

Contributions

The following list includes only slides and tutorials where the individual or organisation has been added to the contributor list. This may not include the sum total of their contributions to the training materials (e.g. GTN css or design, tutorial datasets, workflow development, etc.) unless described by a news post.

Editorial Roles

This contributor has taken on additional responsibilities as an editor for the following topics. They are responsible for ensuring that the content is up to date, accurate, and follows GTN best practices.

• Topic: Development in Galaxy
• Topic: Metabolomics

Tutorials

• Development in Galaxy / Generic plugins 🧐
• Development in Galaxy / Data source integration 🧐
• Development in Galaxy / ToolFactory: Generating Tools From More Complex Scripts 🧐
• Development in Galaxy / ToolFactory: Generating Tools From Simple Scripts 🧐
• Development in Galaxy / Contributing to BioBlend as a developer 🧐
• Development in Galaxy / JavaScript plugins 🧐
• Development in Galaxy / Creating Galaxy tools from Conda Through Deployment 🧐
• Development in Galaxy / Galaxy Webhooks 🧐
• Single Cell / Single-cell quality control with scater 🧐
• Single Cell / Pre-processing of Single-Cell RNA Data 🧐
• Teaching and Hosting Galaxy training / Set up a Galaxy for Training 🧐
• Using Galaxy and Managing your Data / Creating, Editing and Importing Galaxy Workflows 🧐
• Using Galaxy and Managing your Data / Name tags for following complex histories 🧐
• Using Galaxy and Managing your Data / Automating Galaxy workflows using the command line ✍️ 🧐
• Using Galaxy and Managing your Data / Extracting Workflows from Histories 🧐
• Using Galaxy and Managing your Data / Rule Based Uploader: Advanced 🧐
• Variant Analysis / Exome sequencing data analysis for diagnosing a genetic disease 🧐
• Variant Analysis / Calling variants in non-diploid systems 🧐
• Metabolomics / Mass spectrometry: LC-MS preprocessing with XCMS ✍️ 🧐
• Metabolomics / Mass spectrometry: LC-MS analysis ✍️ 🧐
• Introduction to Galaxy Analyses / From peaks to genes 🧐
• Introduction to Galaxy Analyses / Galaxy Basics for genomics 🧐
• Introduction to Galaxy Analyses / Introduction to Genomics and Galaxy 🧐
• Computational chemistry / Running molecular dynamics simulations using GROMACS 🧐
• Computational chemistry / Analysis of molecular dynamics simulations 🧐
• Computational chemistry / Setting up molecular systems 🧐
• Statistics and machine learning / Interval-Wise Testing for omics data 🧐
• Statistics and machine learning / Basics of machine learning 🧐
• Transcriptomics / 1: RNA-Seq reads to counts 🧐
• Transcriptomics / De novo transcriptome assembly, annotation, and differential expression analysis ✍️ 🧐
• Transcriptomics / De novo transcriptome reconstruction with RNA-Seq 🧐
• Transcriptomics / Differential abundance testing of small RNAs 🧐
• Transcriptomics / CLIP-Seq data analysis from pre-processing to motif detection 🧐
• Transcriptomics / GO Enrichment Analysis 🧐
• Assembly / De Bruijn Graph Assembly 🧐
• Assembly / Unicycler Assembly 🧐
• Ecology / Species distribution modeling 🧐
• Ecology / RAD-Seq de-novo data analysis 🧐
• Ecology / RAD-Seq to construct genetic maps 🧐
• Ecology / Regional GAM 🧐
• Contributing to the Galaxy Training Material / Creating a new tutorial 🧐
• Contributing to the Galaxy Training Material / Including a new topic 🧐
• Genome Annotation / Genome annotation with Maker 🧐
• Genome Annotation / Genome Annotation 🧐
• Galaxy Server administration / Galaxy Installation with Ansible 📝
• Epigenetics / ATAC-Seq data analysis 🧐
• Epigenetics / Formation of the Super-Structures on the Inactive X 🧐
• Epigenetics / DNA Methylation data analysis 🧐
• Microbiome / Analyses of metagenomics data - The global picture 🧐

Slides

• Development in Galaxy / Galaxy from a developer point of view 🧐
• Development in Galaxy / Generic plugins 🧐
• Development in Galaxy / Tool Shed: sharing Galaxy tools 🧐
• Development in Galaxy / Tool Dependencies and Containers 🧐
• Development in Galaxy / Tool development and integration into Galaxy ✍️ 🧐
• Development in Galaxy / Galaxy Interactive Environments 🧐
• Development in Galaxy / Galaxy Interactive Tours 🧐
• Development in Galaxy / Tool Dependencies and Conda 🧐
• Development in Galaxy / Scripting Galaxy using the API and BioBlend 🧐
• Development in Galaxy / Galaxy Webhooks 🧐
• Development in Galaxy / Prerequisites for building software/conda packages 🧐
• Metabolomics / Mass spectrometry: LC-MS preprocessing - advanced 🧐
• Metabolomics / Introduction to Metabolomics ✍️ 🧐

FAQs

• Importazione tramite link ✍️
• Importieren über Links ✍️
• Importing via links
• Copiar un conjunto de datos entre historiales ✍️
• Copiare un set di dati tra le cronologie ✍️
• Kopieren eines Datensatzes zwischen Historien ✍️
• Copy a dataset between histories
• Downloading workflows
• Get the workflow id

Events

• Galaxy Beyond Basics: Mastering Workflows, Automation, and Scalability 🎪 🧑‍🏫

GitHub Activity

github Issues Reported

16 Merged Pull Requests

See all of the github Pull Requests and github Commits by Gildas Le Corguillé.

• workflow-automation - Add workflow dataset renaming
  review-needed
  galaxy-interface
• Add a tutorial about Planemo run but from the workflow creation
  review-needed
  template-and-tools
  galaxy-interface
  faqs
• De novo transcriptome reconstruction - some fix
  bug
  transcriptomics
• metabolomics - lcms - tutorial
  review-needed
  metabolomics
  new tutorial
  GCC
• admin - remove extra galaxy_file_path line
  admin

Reviewed 23 PRs

We love our community reviewing each other's work!

• Add a tutorial about Planemo run but from the workflow creation
  review-needed
  template-and-tools
  galaxy-interface
  faqs
• Add biotools recommendation to tool-from-scratch tutorial
• Split up and reorganise dev tutorials
• Remove duplicate snippets for building list collections
• Metabolomics > Lcms analysis : update
  review-needed
  metabolomics

News

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