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Update docs/output.md

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Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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Sofia Stamouli 2022-12-20 20:23:38 +01:00 committed by GitHub
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@ -213,7 +213,7 @@ The main taxonomic profiling file from KrakenUniq is the `*.tsv` file. This prov
- `kraken2/` - `kraken2/`
- `<db_name>_combined_reports.txt`: A combined profile of all samples aligned to a given database (as generated by `krakentools`) - `<db_name>_combined_reports.txt`: A combined profile of all samples aligned to a given database (as generated by `krakentools`)
- <db_name>/ - `<db_name>/`
- `<sample_id>_<db_name>.classified.fastq.gz`: FASTQ file containing all reads that had a hit against a reference in the database for a given sample - `<sample_id>_<db_name>.classified.fastq.gz`: FASTQ file containing all reads that had a hit against a reference in the database for a given sample
- `<sample_id>_<db_name>.unclassified.fastq.gz`: FASTQ file containing all reads that did not have a hit in the database for a given sample - `<sample_id>_<db_name>.unclassified.fastq.gz`: FASTQ file containing all reads that did not have a hit in the database for a given sample
- `<sample_id>_<db_name>.report.txt`: A Kraken2 report that summarises the fraction abundance, taxonomic ID, number of Kmers, taxonomic path of all the hits in the Kraken2 run for a given sample - `<sample_id>_<db_name>.report.txt`: A Kraken2 report that summarises the fraction abundance, taxonomic ID, number of Kmers, taxonomic path of all the hits in the Kraken2 run for a given sample