{ "info": { "author": "Tod Stuber", "author_email": "tod.p.stuber@usda.gov", "bugtrack_url": null, "classifiers": [ "License :: OSI Approved :: MIT License", "Operating System :: OS Independent", "Programming Language :: Python :: 3" ], "description": "sbio\n======\nCollection of simple Bioinformatic tools.\n\nfastq_quality\n------\nScript usage: \n`fastq_quality.py -r1 *R1*.fastq.gz -r2 *R2*.fastq.gz` \n`fastq_quality.py -h`\n\nModule usage: \n`from sbio.fastq_quality import FASTQ_Quality` \n`fq = FASTQ_Quality(read1, read2, sampling_number)` \n`fq.run()` \n\nFiles must be .gz zipped \nPaired reads must contain _R1 or _R2 in file name \n\nAlong with the FASTQ file and sample name 5 FASTQ attributes are obtained:\n>file_size --> FASTQ file size (human readable)\n>total_read_count --> Total read count within each FASTQ file \n>sampling_size --> Random analyzed read count \n>length_mean --> Average read length \n>read_average --> Average read quality \n>reads_gt_q30 --> Read counts with 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