Julia Jakiela

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.

Tutorials

• Single Cell / Importing files from public atlases ✍️ 🧐
• Single Cell / Filter, plot, and explore single cell RNA-seq data with Seurat 🧐
• Single Cell / Filter, plot and explore single-cell RNA-seq data with Scanpy 📝 ⚙️ 🧐
• Single Cell / Combining single cell datasets after pre-processing ⚙️ 🧐
• Single Cell / Removing the effects of the cell cycle 🧐
• Single Cell / Scanpy Parameter Iterator ✍️ 🧐
• Single Cell / Inferring single cell trajectories with Monocle3 ✍️ 🧐
• Single Cell / Inferring single cell trajectories with Scanpy (Python) ✍️ 🧐
• Single Cell / Converting NCBI Data to the AnnData Format 🧐
• Single Cell / Generating a single cell matrix using Alevin ⚙️
• Single Cell / Converting between common single cell data formats ✍️ 🧐
• Single Cell / Generating a single cell matrix using Alevin and combining datasets (bash + R) ✍️ 🧐
• Single Cell / Inferring single cell trajectories with Scanpy ✍️
• Single Cell / Matrix Exchange Format to ESet | Creating a single-cell RNA-seq reference dataset for deconvolution 🧐
• Single Cell / Bulk matrix to ESet | Creating the bulk RNA-seq dataset for deconvolution 🧐
• Single Cell / Inferring single cell trajectories with Monocle3 (R) ✍️ 🧐
• Single Cell / Filter, plot and explore single-cell RNA-seq data with Scanpy (Python) 🧐
• Computational chemistry / Data management in Medicinal Chemistry ✍️
• FAIR Data, Workflows, and Research / REMBI - Recommended Metadata for Biological Images – metadata guidelines for bioimaging data ✍️
• FAIR Data, Workflows, and Research / FAIR Bioimage Metadata ✍️
• Contributing to the Galaxy Training Material / Creating content in Markdown 🧐
• Contributing to the Galaxy Training Material / Updating tool versions in a tutorial 📝
• Metabolomics / Predicting EI+ mass spectra with QCxMS ✍️ 🧐
• Ecology / Production d'indicateurs champs de bloc 🧐

Slides

• Single Cell / Trajectory analysis ✍️ 🧐
• Metabolomics / Predicting EI+ mass spectra with QCxMS ✍️ 🧐

Video Recordings

• Single Cell / Inferring single cell trajectories with Monocle3 💬 🗣
• Computational chemistry / Data management in Medicinal Chemistry 🗣

Events

• 2024 Bioinformatics Bootcamp - The Open University 🧑‍🏫

GitHub Activity

github Issues Reported

30 Merged Pull Requests

See all of the github Pull Requests and github Commits by Julia Jakiela.

• QCxMS prediction tutorial
  template-and-tools
  metabolomics
• match updated Scanpy fa2-modified, add an option to download input data
  single-cell
• Updates to single cell coded tutorials
  single-cell
• Single cell case study tutorials updates
  single-cell
• Bioimaging tutorial typo fixed
  fair

Reviewed 11 PRs

We love our community reviewing each other's work!

• QCxMS prediction tutorial
  template-and-tools
  metabolomics
• Updates to single cell coded tutorials
  single-cell
• Seurat Tool FIlter Plot & Explore edits by Author
  single-cell
• New tutorial - single cell data import and format conversion
  template-and-tools
  contributing
  new tutorial
  ecology
  news
• New tutorial - generating a single cell matrix using Alevin (bash + R)
  single-cell

News

External Links

Favourite Topics

Favourite Formats