Galaxy | Europe | Published Workflow | ONT -- Metagenomics-Kraken2-Krona

Step	Annotation
Step 1: Input dataset fast5-Signals-Raw.tar.gz select at runtime
Step 2: Kraken2 Single or paired reads Single Input sequences Output dataset 'output' from step 1 Print scientific names instead of just taxids True Confidence 0.0 Minimum Base Quality 0 Enable quick operation False Split classified and unclassified outputs? False Create Report: Print a report with aggregrate counts/clade to file True Format report output like Kraken 1's kraken-mpa-report True Report counts for ALL taxa, even if counts are zero False Select a Kraken2 database fungi2019-03
Step 3: Reverse Input tabular dataset Output dataset 'report_output' from step 2
Step 4: Replace Text File to process Output dataset 'out_file' from step 3 Replacements Replacement 1 Find pattern \\| Replace with: \t
Step 5: Krona pie chart What is the type of your input data Tabular Input file Output dataset 'outfile' from step 4 Provide a name for the basal rank Root Combine data from multiple datasets? False

About this Workflow

milad

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