IDs and intensities

Retention time drift

Negative control / single cell comparison

Here we plot the summed intensities across all peptides from a given single cell, for all single cells and negative controls in the data.

Carrier Statistics

## [1] "No carrier used"

Protein and peptide numbers per cell

All the peptides plotted are identified at 1% global FDR.

Data completness based on filtering (uses intersected subset of proteins from channel qval filtered data)

Correlations between peptides mapping to protein compared to variance

Cell size information

PCA and batch effects checks

Additional dimensionality reduction and clustering

Viz proteins of interest

## [1] "No Protein added"

Cell type positions across slide

Label position across slide