drawHeatMapForAtlasExperiment


        Atlas experiment ID which is to be visualized
    

experimentid


        The significance beyond which a gene should be included for visualisation. A significance value of '5' will only include genes with a t-stat of >= 5 or 

tstatsignificance


        Draw only genes which are differentially expressed across this number of specified factors (default is 1)
    

numoffactorsdiffexpressedacross


        SPARQL endpoint to query data from. Default value is the live Atlas SPARQL endpoint but this can be overidden. 
    

endpoint


    Draws a heatmap of genes that are differentially expressed beyond a given t stat signficance against conditions they are diff expressed for for a given Atlas experiment. 


Query the Gene Expression Atlas RDF data at the European Bioinformatics Institute using genes, experimental factors (such as disease, cell type, compound treatments), pathways and proteins. Also contains a function to perform an enrichment of your gene list across Experimental Factor Ontology (EFO) using the Atlas background set.

James Malone

AtlasRDF

Gene Expression Atlas query and gene set enrichment package.

drawHeatMapForAtlasExperiment function

Atlas experiment ID which is to be visualized

The significance beyond which a gene should be included for visualisation. A significance value of '5' will only include genes with a t-stat of >= 5 or <= -5.

Draw only genes which are differentially expressed across this number of specified factors (default is 1)

SPARQL endpoint to query data from. Default value is the live Atlas SPARQL endpoint but this can be overidden.

Draws a heatmap of genes that are differentially expressed beyond a given t stat signficance against conditions they are diff expressed for for a given Atlas experiment.

drawHeatMapForAtlasExperiment: Produce a heatmap of differentially expressed genes vs conditions for an Atlas experiment.

Description

Usage

Arguments

Value

Examples