Package index

Data Processing and Quality Control

get_count_phosphosite()

Count Phosphosites Based on Probability Threshold

get_count_protein()

Count Protein groups Based on Probability Threshold

get_cv()

Calculate Coefficient of Variation (CV) and Optionally Draw Plot

get_sty()

Calculate and Visualize Phosphorylation Site (S/T/Y) Distribution

Data Normalization

get_norm_phos()

Normalize Phosphoproteomics Data and Perform Differential Analysis with `limma`

get_norm_prot()

Normalize Protein Data and Perform Differential Expression Analysis

Functional and Pathway Enrichment Analysis

get_GO()

Perform Gene Ontology (GO) Enrichment Analysis and Visualization

get_KEGG()

Perform KEGG Pathway Enrichment Analysis and Visualization

Kinase and Drug Prediction

get_KSEA()

Perform Kinase Substrate Enrichment Analysis (KSEA) and generate visualizations.

get_inhibitor()

Get Kinase Inhibitors from a Database

Others

get_annotation()

Map Gene Identifiers