Mass Spectrometry-Based Single-Cell Proteomics Data Analysis

Documentation for package ‘scp’ version 1.2.0

aggregateFeaturesOverAssays	Aggregate features over multiple assays
computeMedianCV_SCoPE2	(Deprecated) Compute the median coefficient of variation (CV) per cell
computeSCR	Compute the sample over carrier ratio (SCR)
divideByReference	Divide assay columns by a reference column
medianCVperCell	Compute the median coefficient of variation (CV) per cell
mqScpData	Example MaxQuant/SCoPE2 output
normalizeSCP	Normalize single-cell proteomics (SCP) data
pep2qvalue	Compute q-values
readSCP	Read single-cell proteomics data as a QFeatures object from tabular data and metadata
readSingleCellExperiment	Read SingleCellExperiment from tabular data
rowDataToDF	Extract the 'rowData' of a 'QFeatures' object to a 'DataFrame'
sampleAnnotation	Single cell sample annotation
scp1	Single Cell QFeatures data