Commit 131fb116 authored by Mathieu Giraud's avatar Mathieu Giraud

doc/index.md: update and reorganize, more links to actual documents

parent 555eccb5
......@@ -14,15 +14,22 @@ methods and software.
- Tutorial "Mastering the Vidjil web application": [english](./tutorial/mastering-vidjil.html) ([pdf](./tutorial/mastering-vidjil.pdf)), [français](./tutorial/mastering-vidjil-fr.html)
([pdf](./tutorial/mastering-vidjil-fr.pdf)). Start by this tutorial to have an overview of Vidjil.
- Web application [user manual](user.md)
- Web platform [user manual](user.md)
- [Demo access](http://app.vidjil.org/) to the patient, experiment and sample server
- [Public datasets](http://www.vidjil.org/data/) supporting Vidjil publications
### Algorithm, web application, server, developper documentation
### Algorithm and server documentation
- [Vidjil-algo documentation](vidjil-algo.md), usage from the command-line
- [Server administration](admin.md), configuration and administration features available from the web application
- [Docker/Server installation and maintenance](server.md), server installation, configuration and maintenance from the command line
### Developer documentation
- [Vidjil-algo documentation](vidjil-algo.md)
- [Encoding clones with V(D)J recombinations](vidjil-format.md), specification of the `.vidjil` file format
- [Docker/Server installation and maintenance](server.md)
- Specification of the [.should-vdj](should-vdj.org) format for encoding curated V(D)J designations
- List of implemented [warnings](warnings.md), list of default [tags](tags.org)
- Developer documentation: [Vidjil-algo](dev-algo.md), web application: [client](dev-client.md), [server](dev-server.md)
These documentations and additional developer and maintainer documentation
are available from the [doc/](http://gitlab.vidjil.org/tree/master/doc) directory in the source files.
......
......@@ -9,10 +9,11 @@ repo_name: gitlab
pages:
- / : index.md
- web, user manual: user.md
- locus and recombinations: locus.md
- user manual: user.md
- recombinations: locus.md
- vidjil-algo: vidjil-algo.md
- .vidjil format: vidjil-format.md
- admin: admin.md
- server: server.md
- credits: credits.md
......
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