Pan1c_View

Name

Pan1c_View

Description

Report builder for Pan1c.

Pan1c (Pangenome at Chromosome Scale) is a Snakemake workflow designed to simplify the construction and quality assessment of pangenome graphs. The workflow consists of splitting the overall graph construction into chromosome-level graph construction, followed by concatenation. This reduces the complexity of graph construction and exploration while enabling the use of cluster infrastructures, ultimately reducing the overall construction time.

Demo

Follow this link to see a sample Pan1c View report.

Installation

No installation required. All you need to do is download the code from your web server and add the data from Pan1c to the 'project' folder.

git clone git@forgemia.inra.fr:philippe.bardou/pan1c_qc.git

The project folder tree:

project/        <= put Pan1c output in a "project" directory
└── 11Ch-v1b
    ├── data
    ├── Pan1c.11Ch-v1b.assembly.json
    ├── Pan1c.11Ch-v1b.documentation.json
    ├── Pan1c.11Ch-v1b.graph.json
    ├── Pan1c.11Ch-v1b.tags.json
    └── Pan1c.11Ch-v1b.var.json

Note: For development, a local lightweight HTTP server can be used to serve the pages (http://127.0.0.1:8080/):

npx http-server .

Authors and acknowledgment

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License

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