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Update index.rst
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vlilanl authored Nov 5, 2024
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Expand Up @@ -132,7 +132,7 @@ Output

A directory named with the prefix of the FASTQ input file will be created and multiple output files are generated; the main QC FASTQ output is named prefix.anqdpht.fastq.gz. Using the dataset above as an example, the main output would be named SRR7877884-int-0.1.anqdpht.fastq.gz. Other files include statistics on the quality of the data; what was trimmed, detected, and filtered in the data; a status log, and a shell script documenting the steps implemented so the workflow can be reproduced.

An example output JSON file (filterStats.txt) is shown below:
An example output txt file (filterStats.txt) is shown below:

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kfilteredBases=0
outputReads=249398
outputBases=37003919
gcPolymerRatio=0.165888
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