New tutorial: Clustering 3K PBMCs with Bioconductor - #6976

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kevinrue wants to merge 25 commits into

galaxyproject:mainfrom

kevinrue:kra-scrnaseq-bioc-pbmc3k

Commits on Jul 3, 2026

create tutorial.md using scrna-seurat-pbmc3k as template
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7821791
declare R libraries used
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cb2daaa
copy data upload section from seurat
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778562c
add read10Xcounts step
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a292ea8

Commits on Jul 4, 2026

small edits
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4a693c8
add context to sce objects
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1631860

Commits on Jul 5, 2026

fix gtn links
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e036d77
add a section about displaying the sce object
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d1c4947
add explanations
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169d44e
do not skip a heading level
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111ba87

Commits on Jul 6, 2026

add identification of mitochondrial genes and calculation of quality control metrics
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f3f7d80
extend the tutorial up to the calculation of quality control metrics
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2e8ad8b
reorder text
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a682fe2
highlight code and comments with appropriate markup
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9ad55f9
apply markup until the end of the tutorial so far
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eee74ba
add mention of separate scater tutorial as reference
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8afca20

Commits on Jul 8, 2026

Commits on Jul 14, 2026

filter out low quality cells
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a9a7040
expand tutorial to visualisation of qc metrics after filtering
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7e51909

Commits on Jul 15, 2026

update tutorial to logNormCounts
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0b9aacd
extend tutorial to modelling of gene variance
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0cbf3e0