comparison qualimap_bamqc.py @ 10:4e5e0a116434 draft

planemo upload for repository https://github.com/scottx611x/qualimap2 commit dc78b7c4b1780b316ca4aba2be247969ac1100ec-dirty

9:e14c864ee2b0

    parser = argparse.ArgumentParser(
        description="Generate Bam Quality Statistics"
    )
    parser.add_argument('--input_file')
    parser.add_argument('--out_genome_file', default="genome_coverage.txt")
    parser.add_argument('--out_dir')
    parser.add_argument('--java_mem_size', default="8G")

    args = parser.parse_args()
    
    qualimap_bamqc(
        args.input_file,
        args.out_genome_file,
        args.out_dir,
        args.java_mem_size

10:4e5e0a116434

    parser = argparse.ArgumentParser(
        description="Generate Bam Quality Statistics"
    )
    parser.add_argument('--input_file')
    parser.add_argument('--out_genome_file', default="genome_coverage.txt")
    parser.add_argument('--out_dir', default="qualimap_results")
    parser.add_argument('--java_mem_size', default="8G")

    args = parser.parse_args()

    qualimap_bamqc(
        args.input_file,
        args.out_genome_file,
        args.out_dir,
        args.java_mem_size