Protein Quantification in Mass Spectrometry-Based Proteomics

---

Documentation for package ‘iq’ version 1.9.12

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

create_protein_list	Creating a list of matrices of fragment ion intensities for all proteins
create_protein_table	Protein quantification for a list of proteins
extract_annotation	Protein annotation extraction
fast_MaxLFQ	The MaxLFQ algorithm
fast_preprocess	Data filtering and normalization
fast_read	Reading data from an input file
maxLFQ	The MaxLFQ algorithm for protein quantification
meanInt	The meanInt algorithm for protein quantification
median_polish	A wrapper for the R implementation of the median polish algorithm
plot_protein	Plotting the underlying quantitative data for a protein
preprocess	Data preprocessing for protein quantification
process_long_format	Long format to a wide format table using the MaxLFQ algorithm
process_wide_format	Merging rows with identical values in a particular column in a table
spikeins	An example dataset of 12 spike-in proteins
topN	The topN algorithm for protein quantification