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BCCDC-PHL · Feb 2, 2024 · febf86e · febf86e
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 # KMA-cgMLST
 
+```mermaid
+flowchart TD
+fastq[fastq]
+scheme[scheme]
+fastq --> fastp(fastp)
+fastp -- trimmed_fastq --> kma_align(kma_align)
+scheme --> kma_align
+kma_align -- alignment_results --> kma_result_to_mlst(kma_result_to_mlst)
+kma_result_to_mlst -- mlst --> count_called_alleles(count_called_alleles)
+```
+
 ## Usage
 
 ### Preparing your cgMLST scheme