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coverage_test

Python script takes in output from Sambamba and returns a report with a list of genes with <100% coverage at 30x

Usage

python coverage.py -i [input_file]

The script creates two csv files

  1. gene_names.csv = Contains a list of genes with less than 100% coverage at 30x
  2. low_coverage_summary.csv = Coverage summary for the exons in the genes in gene_names.csv