Commit 7f19aaae authored by wyleung's avatar wyleung

Initial documentation using mkdocs, #38 user documentation

parent 22991efc
# About biopet
## The philosophy
We develop tools and pipelines for several purposes in analysis. Most of them
share the same methods. So the basic idea is to let them work on the same
platform and reduce code duplication and increase maintainability.
## Compute Cluster support
## The Team
## Contact
We even have a website: https://sasc.lumc.nl/
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# Introduction
# Sun Grid Engine
# Open Grid Engine
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# Welcome to Biopet
(Bio Pipeline Execution Tool)
## About
Go to the [about page](/about)
Copyright [2013-2014] [Sequence Analysis Support Core]
Licensed under the Apache License, Version 2.0 (the "License");
you may not use this file except in compliance with the License.
You may obtain a copy of the License at
http://www.apache.org/licenses/LICENSE-2.0
Unless required by applicable law or agreed to in writing, software
distributed under the License is distributed on an "AS IS" BASIS,
WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
See the License for the specific language governing permissions and
limitations under the License.
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# Introduction
# Invocation
# Example
# Testcase A
# Testcase B
# Examine results
## Result files
## Best practice
# References
# Introduction
# Invocation
# Example
# Testcase A
# Testcase B
# Examine results
## Result files
## Best practice
# References
# Introduction
# Invocation
# Example
# Testcase A
# Testcase B
# Examine results
## Result files
## Best practice
# References
# Introduction
# Invocation
# Example
# Testcase A
# Testcase B
# Examine results
## Result files
## Best practice
# References
# Introduction
# Invocation
# Example
# Testcase A
# Testcase B
# Examine results
## Result files
## Best practice
# References
# Introduction
# Invocation
# Example
# Testcase A
# Testcase B
# Examine results
## Result files
## Best practice
# References
site_name: Biopet
pages:
- ['index.md', 'Home']
- ['pipelines/basty.md', 'Pipelines', 'Basty']
- ['pipelines/flexiprep.md', 'Pipelines', 'Flexiprep']
- ['pipelines/gentrap.md', 'Pipelines', 'Gentrap']
- ['pipelines/mapping.md', 'Pipelines', 'Mapping']
- ['pipelines/sage.md', 'Pipelines', 'Sage']
- ['pipelines/yamsvp.md', 'Pipelines', 'Yamsvp']
- ['cluster/oge.md', 'OpenGridEngine']
- ['about.md', 'About']
- ['license.md', 'License']
theme: readthedocs
repo_url: https://git.lumc.nl/biopet/biopet
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