diff --git a/seminars/bioc-africa/images/fabricio.png b/seminars/bioc-africa/images/fabricio.png new file mode 100644 index 0000000..6bbe03e Binary files /dev/null and b/seminars/bioc-africa/images/fabricio.png differ diff --git a/seminars/bioc-africa/index.qmd b/seminars/bioc-africa/index.qmd index 28c0b40..9b3e69f 100644 --- a/seminars/bioc-africa/index.qmd +++ b/seminars/bioc-africa/index.qmd @@ -80,16 +80,16 @@ The series includes introductory and thematic sessions led by members of the Bio ### Featured seminar -![](images/Jacques.png){width="85%" fig-alt="Multiomics data integration with Bioconductor poster"} +![](images/fabricio.png){width="85%" fig-alt="How to develop and submit a package to Bioconductor poster"} -- Date: 16 September and 23 September 2026 +- Date: 28 October 2026 - Time: 4 PM EAT / 3 PM CAT / 2 PM WAT -- Presenters: Dr Jacques Serizay (CNRS) +- Presenters: Dr Fabricio Almeida-Silva (Ghent University, Belgium) -This series of sessions explore how to analyse single-cell RNA sequencing data using Bioconductor. +This session will explore how to develop and submit a package to Bioconductor. -[Register to attend](https://us06web.zoom.us/meeting/register/J8zlMhDfRuWCTBT0Fv7fNg) +[Register to attend](https://us06web.zoom.us/meeting/register/HXnVPaMwT4qbtiydBDyR-w) ### Bioconductor Africa calendar @@ -115,6 +115,49 @@ Curious what the Bioconductor Africa seminars are like? Recordings from previous sessions are available below. If you're new to Bioconductor, you may want to start with the introductory session. +### Single-cell data analysis series + +A two-part series exploring Single-cell tarnscriptomics data analysis with Bioconductor. + +#### Single-cell data analysis (Part 2) + +- Date: 23 September 2026 +- Presenter: Jacques Serizay (Institut Pasteur, Paris) + +In this second session, Jacques introduced clustering, visualising and sanity-checking clusters, annotating by hand, with known markers, annotating automatically, against a public reference and real differential expression: pseudobulk and DESeq2 + +
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+ +Session notes: [Single-cell data analysis part 2](https://annuel.framapad.org/p/02gxs9zb4x-anp0?lang=en) + +#### Single-cell data analysis (Part 1) + +- Date: 16 September 2026 +- Presenter: Jacques Serizay (Institut Pasteur, Paris) + +In this first session, Jacques introduced the standard Bioconductor single-cell RNA-seq workflow, taking participants from a raw count matrix to a map of cells and ultimately to cell type identification. The session covered the key steps in analysing single-cell data using the SingleCellExperiment framework in R and Bioconductor, including understanding and reading a single-cell count matrix, building a SingleCellExperiment object, quality control and filtering, normalisation and feature selection, dimensionality reduction using PCA, UMAP and t-SNE, and saving and working with the resulting SingleCellExperiment object. + +
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+ +Session notes: [Single-cell data analysis part 1](https://annuel.framapad.org/p/biocafrica-single-cell-rna-seq-analysis-pt-1-ankb?lang=en) ### Multi-omics data integration with Bioconductor