Genomic Random Interval (GRIN)
Generate Box Plots of Gene Expression by Lesion Groups
Visualize Lesion and Expression Data by Pathway
Prepare Lesion and Expression Data for Kruskal Wallis Test
Generate Waterfall Plot of Lesion and Expression Data
Prepare Lesion and Expression Data for Waterfall Plots
Compute Genome-wide Plotting Coordinates
Count Gene Lesion Hits
Assign Default GRIN Colors
Find Gene Lesion Overlaps
Genome-wide -log10(q-value) Plot
Genome-wide Lesion Plot
Get Chromosome Length
Get Ensembl Gene and Regulatory Features Annotation Data
Associate Lesions with Clinical Outcomes
GRIN Lesion Stacked Bar Plot
GRIN Evaluation of Lesion Boundaries
GRIN OncoPrint-Compatible Lesion Matrix
GRIN Statistics Lesions Plot
Execute GRIN Statistical Framework
Associate Lesion Groups with Gene Expression
Plot of Gene Lesions and Transcripts
Oncoprint Proportions by Lesion Type
Order and Index Gene Annotation Data
Order and Index Lesion Data
Prepare Binary Lesion Matrix
Prepare Gene and Lesion Data for GRIN Analysis
Prepare Lesion Type Matrix
Find Probability of Locus Hit
Generate Waterfall Plots for Top Significant Genes
Write GRIN Results to Excel File
Improved version of 'GRIN' software that streamlines its use in practice to analyze genomic lesion data, accelerate its computing, and expand its analysis capabilities to answer additional scientific questions including a rigorous evaluation of the association of genomic lesions with RNA expression. Pounds, Stan, et al. (2013) <DOI:10.1093/bioinformatics/btt372>.
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