Difference between revisions of "RSeQC"
| Line 12: | Line 12: | ||
Also: | Also: | ||
| + | |||
| + | junction_annotation.py -i <bamfile> -r <reference_rendered_as_gene_model_bed_file> -o <output_dir> | ||
| + | |||
junction_saturation.py -i <bamfile> -r <reference_rendered_as_gene_model_bed_file> -o <output_dir> | junction_saturation.py -i <bamfile> -r <reference_rendered_as_gene_model_bed_file> -o <output_dir> | ||
Latest revision as of 14:18, 23 February 2017
Introduction
This is a python package (so no special module loading is required) and is especially used for its inner_distance.py and geneBody_coverage.py scripts.
Usage
inner_distance.py -i <bamfile> -r <reference_rendered_as_gene_model_bed_file> -o <output_dir>
This should give a PDF plot.
geneBody_coverage.py -i <bamfile> -r <reference_rendered_as_gene_model_bed_file> -o <output_dir>
Also:
junction_annotation.py -i <bamfile> -r <reference_rendered_as_gene_model_bed_file> -o <output_dir>
junction_saturation.py -i <bamfile> -r <reference_rendered_as_gene_model_bed_file> -o <output_dir>
