ResDocs/mkdocs.yml at master · BioKT/ResDocs · GitHub

1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
site_name: Research Toolbox
site_url: https://biokt.github.io/ResDocs/
repo_url: https://github.com/BioKT/ResDocs
use_directory_urls: False
theme: readthedocs
locale: en
include_sidebar: false
nav:
  - Home: 'index.md'
  - 'Molecular Dynamics':
    - 'Getting Started': 'Starting/guide.md'
    - Gromacs:
      - Installation: 'Gromacs/installation.md'
      - Simulation setup: 'Gromacs/md_setup.md'
      - Submission scripts: 'Gromacs/submission.md'
      - Benchmarks: 'Gromacs/benchmarks.md'
      - PBS scripts: 'PBS/documentation.md'
    - Amber:
      - Building molecules: 'Amber/peptide.md'
    - 'VMD': 'VMD/tools.md'
  - 'Parametrization':
    - Ambertools:
      - Aminoacid residue: 'MET-parametrize/parametrization.md'
    - MCPB.py:
      - Installation: 'MCPB.py/installation.md'
      - Parametrization: 'MCPB.py/parametrization.md'
      - Editing force fields: 'MCPB.py/force-field-editing.md'


  - Phylogenetic trees:
    - Beast: 'Beast/installation.md'
  - Systems:
      - Linux:
        - 'Linux administration': 'Linux/admin.md'
      - Mac OS X:
        - 'Mac OS X hacks': 'MacOSX/hacks.md'
  - Other: 'Other/other.md'
  - How to contribute?:
    - MkDocs:
      - Installation: 'MkDocs/installation.md'
    - Markdown:
      - Syntax: 'Markdown/syntax.md'