Reference.md

-# Entity-Relationship diagram
-
-```mermaid
-
-classDiagram
-
-Sample --> Marker : is defined by
-Sample --> Run : is defined by
-Sample --> Projet : is defined by
-Projet --> Run : contains
-Marker --> MarkerSampleDescription : refers to
-
-
-Sample : id_sample
-Sample : id_marker
-Sample : id_plaque
-Sample : id_run
-Sample : id_projet
-
-Marker : id_marker
-Marker : .dat file path
-
-MarkerSampleDescription : id_plaque
-MarkerSampleDescription : barcode3'
-MarkerSampleDescription : barcode5'
-MarkerSampleDescription : primer3'
-MarkerSampleDescription : primer5'
-
-Projet : id_projet
-Projet : name
-
-Run : id_run
-Run : name
-Run : R1 .fastq.gz file path
-Run : R2 .fastq.gz file path
-```
-
-# Architecture Diagram Software
-
-
-
 # Workflow management
 
 We use [snakemake](https://snakemake.readthedocs.io/en/stable/), a workflow management system to create scalable and reproducible metabarcoding analysis.
@@ -219,6 +178,45 @@ graph TD;
 
 
 ## write demultiplex table
+
+
+
+```mermaid
+
+classDiagram
+
+Sample --> Marker : is defined by
+Sample --> Run : is defined by
+Sample --> Projet : is defined by
+Projet --> Run : contains
+Marker --> MarkerSampleDescription : refers to
+
+
+Sample : id_sample
+Sample : id_marker
+Sample : id_plaque
+Sample : id_run
+Sample : id_projet
+
+Marker : id_marker
+Marker : .dat file path
+
+MarkerSampleDescription : id_plaque
+MarkerSampleDescription : barcode3'
+MarkerSampleDescription : barcode5'
+MarkerSampleDescription : primer3'
+MarkerSampleDescription : primer5'
+
+Projet : id_projet
+Projet : name
+
+Run : id_run
+Run : name
+Run : R1 .fastq.gz file path
+Run : R2 .fastq.gz file path
+```
+
+
 ### read 'rapidrun' .tsv file
 ### remove blacklisted runs & projects
 ### write table projet/run/sample