Merge pull request #294 from maxulysse/fetchngs_subway_map

replace mermaid diagram with subway map

CHANGELOG.md

@@ -3,7 +3,7 @@
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
-## [[1.12.0](https://github.com/nf-core/fetchngs/releases/tag/1.12.0)] - 2024-02-23
+## [[1.12.0](https://github.com/nf-core/fetchngs/releases/tag/1.12.0)] - 2024-02-29
 
 ### :warning: Major enhancements
 
@@ -50,6 +50,7 @@ Thank you to everyone else that has contributed by reporting bugs, enhancements
 - [PR #283](https://github.com/nf-core/fetchngs/pull/283) - Template update for nf-core/tools v2.13
 - [PR #288](https://github.com/nf-core/fetchngs/pull/288) - Update Github Action to run full-sized test for all 3 download methods
 - [PR #290](https://github.com/nf-core/fetchngs/pull/290) - Remove mentions of deprecated Synapse functionality in pipeline
+- [PR #294](https://github.com/nf-core/fetchngs/pull/294) - Replace mermaid diagram with subway map
 
 ### Software dependencies
 

README.md

@@ -20,34 +20,7 @@
 
 **nf-core/fetchngs** is a bioinformatics pipeline to fetch metadata and raw FastQ files from both public databases. At present, the pipeline supports SRA / ENA / DDBJ / GEO ids (see [usage docs](https://nf-co.re/fetchngs/usage#introduction)).
 
-```mermaid
-flowchart LR
-    IDS("Input
-    File") --> SRA & GEO & ENA & DDBJ
-    subgraph SG_DBIDS[Database IDs]
-      SRA("SRA")
-      GEO("GEO")
-      ENA("ENA")
-      DDBJ("DDBJ")
-    end
-    subgraph SG_METADATA[Download Metadata]
-      SRA & GEO & ENA & DDBJ --> META("Get
-      Metadata")
-      META --> LINKS("Get
-      Download
-      Links")
-    end
-    subgraph SG_FETCH_FASTQ[Download FastQ]
-      LINKS --> |--download_method 'ftp' | FTP("FTP")
-      LINKS --> |--download_method 'aspera' | ASPERA("Aspera")
-      LINKS --> |--download_method 'sratools' | SRATOOLS("sra-tools")
-    end
-    subgraph SG_FASTQ[Pipeline Outputs]
-      ASPERA & FTP & SRATOOLS --> FASTQ("FastQ")
-      FASTQ --> SAMPLESHEET("Samplesheet")
-    end
-    LINKS --> |--skip_fastq_download| SAMPLESHEET
-```
+![nf-core/fetchngs metro map](docs/images/nf-core-fetchngs_metro_map_grey.png)
 
 ## Usage