Les différents fichiers et leur chronologie

                    +----------------+
                    |    Fichier     |
                    |      RAW       |
                    |(.fast5 / pod5) |
                    +----------------+
                             |
                             v
              +----------------------------+
              |         Basecalling        |
              |   (Guppy, MinKNOW, etc.)   |
              +----------------------------+
                             |
                             v
                    +----------------+
                    |    Fichier     |
                    |     FASTQ      |
                    |    (.fastq)    |
                    +----------------+
                             |
                             |-----------------------------------+
                             |                                   |
                             v                                   v
              +----------------------------+     +--------------------------+
              |          Filtrage          |     |        Alignement        |
              |    (Qualité des Reads)     |     |  (minimap2, etc.) - SAM  |
              +----------------------------+     |           /BAM           |
                             |                   +--------------------------+
                             |                                   |
                             |                                   v
                             |                   +-------------------------+
                             |                   |     Variant Calling     |
                             |                   |         (FreeBayes)     |
                             |                   +-------------------------+
                             v                                  |
                    +----------------+                          v
                    |    Fichier     |              +--------------------------+
                    |  FASTQ Filtré  |              |         Consensus        |
                    |    (.fastq)    |              |  (.fasta, .vcf, etc.)    |
                    +----------------+              +--------------------------+
                             |                                   |
                             |                                   |
                             v                                   v
              +----------------------------+     +--------------------------+
              |         Analyse            |     |    Rapports et Analyse   |
              |   (Visualisation, etc.)    |     | (Rapports, Visualisation)|
              +----------------------------+     +--------------------------+