PIP-1142-parse-illumina-trimstats #26
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keenangraham
approved these changes
May 5, 2020
qc_utils/parsers.py
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| with open(path_to_trimstats) as f: | ||
| rawstats = f.readline() | ||
| tokens = rawstats.split(";") | ||
| qc_dict["total_read_pairs_processed"] = int(tokens[0].split()[-1]) |
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I wonder if these should match the keys in the actual quality metric or if that conversion happens during accessioning? https://www.encodeproject.org/trimming-quality-metrics/e6933612-854d-4218-b8dc-e3c3f311d602/?format=json
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Yeah, we probably should do it that way to be less arbitrary.
ottojolanki
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May 8, 2020
* PIP-1142-parse-illumina-trimstats (#26) * PIP-1142-parse-illumina-trimstats(#26) * PIP-1144-parse-bamcounts(#27) * PIP-1148-parse-preseq-targets (#28) * PIP-1145-parse-hotspot1-spot-score (#29) * PIP-1146-parse-duplication-metrics (#30) * PIP-1157-value-conversion (#31) * PIP-1150-parse-insert-size-info(#33) * PIP-1143-parse-stats (#32) * PIP-1149-parse-picard-insert-size-metrics(#34)
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