diff --git a/docs/yaml_docs/spatial_qc.md b/docs/yaml_docs/spatial_qc.md index b806909e..5e4b1f49 100644 --- a/docs/yaml_docs/spatial_qc.md +++ b/docs/yaml_docs/spatial_qc.md @@ -75,11 +75,12 @@ This part of the workflow allows to generate additional QC metrics that can be u
The following parameters specify the QC metrics to plot in violin and spatial embedding plots. Plots are generated for each slide specified in the submission file separately. +
plotqc
- grouping_var `String`, Default: None
Comma-separated string without spaces, e.g. _sample_id,batch_ of categorical columns in `.obs`. One violin will be created for each group in the violin plot. Not mandatory, can be left empty. - + - spatial_metrics `String`, Default: None
Comma-separated string without spaces, e.g. _total_counts,n_genes_by_counts_ of columns in `.obs` or `.var`.
Specifies which metrics to plot. If metric is present in both, `.obs` and `.var`, **both will be plotted.**