sample_initial

sample_subtracted

sample_cluster

sample_goterms

sample_complete

control_initial

These <code>msarc</code> objects are used as examples in the <code>msarc</code> package.

datasets

The output of an affinity-purification mass spectrometry
 experiment is typically a list of proteins that were observed
 in the experiment, identified by UniProt identifiers
 (http://www.uniprot.org/).  This package takes as input a list of
 UniProt identifiers, and the associated Mascot scores from the
 experiment (which indicate the likelihood that the protein has
 been correctly identified), clusters them by gene ontology
 category (http://geneontology.org/), then draws diagrams
 showing the results in hierarchical clusters by category, with lines
 for individual proteins representing the associated Mascot score.
 The results are in general not publication-ready, but will rather
 require editing via a graphics editor that can interpret SVG (scalable
 vector graphics) format.  As an alternative representation, the
 package will also generate tag clouds based on the Mascot scores.

Gord Brown

msarc

Draw Diagrams (mis)Representing the Results of Mass Spec
        Experiments

sample_initial function

format

From Mohammed, H., D'Santos, C., Serandour, A. A., Ali, H. R., Brown, G. D., Atkins, A., et al. (2013). Endogenous Purification Reveals GREB1 as a Key Estrogen Receptor Regulatory Factor. Cell reports, 3(2), 342-349. doi:10.1016/j.celrep.2013.01.010

source

Sample Objects for the msarc Package

sample_initial: Sample Objects for the msarc Package

Description

Usage

Arguments

format

source

Examples