# Clinical-Genomics

## develop

- [Introduction](https://clinical-genomics.gitbook.io/project-mip/develop/readme.md)
- [Documentation](https://clinical-genomics.gitbook.io/project-mip/develop/documentation.md)
- [Setup](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/setup.md)
- [References](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/references.md)
- [Analysis](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/analysis.md)
- [Parameters](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/parameters.md)
- [Recipes](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/recipes.md)
- [Code](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/code.md)
- [Best Practise](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/code/best_practise.md)
- [Adding an env](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/code/adding-an-env.md)
- [API](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api.md)
- [Define Parameters](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/define-parameters.md)
- [Download References](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/download-references.md)
- [Identifiers](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/identifiers.md)
- [Initiation File](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/initiation-file.md)
- [Install](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/install.md)
- [IO](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/io.md)
- [Modules](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/modules.md)
- [Path](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/path.md)
- [Pedigree](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/pedigree.md)
- [QC metrics](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/qc_metrics.md)
- [Sample info](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/sample_info.md)
- [Tests](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/tests.md)
- [Log](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/tests/log.md)
- [Data](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/tests/data.md)
- [Subroutines](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/api/subroutines.md)
- [Cli](https://clinical-genomics.gitbook.io/project-mip/develop/documentation/cli.md)

## 1.0.0

- [Introduction](https://clinical-genomics.gitbook.io/project-mip/readme.md)
- [Documentation](https://clinical-genomics.gitbook.io/project-mip/documentation.md)
- [Setup](https://clinical-genomics.gitbook.io/project-mip/documentation/setup.md)
- [References](https://clinical-genomics.gitbook.io/project-mip/documentation/references.md)
- [Analysis](https://clinical-genomics.gitbook.io/project-mip/documentation/analysis.md)
- [Parameters](https://clinical-genomics.gitbook.io/project-mip/documentation/parameters.md)
- [Recipes](https://clinical-genomics.gitbook.io/project-mip/documentation/recipes.md)
- [Code](https://clinical-genomics.gitbook.io/project-mip/documentation/code.md)
- [Best Practise](https://clinical-genomics.gitbook.io/project-mip/documentation/code/best_practise.md)
- [Adding an env](https://clinical-genomics.gitbook.io/project-mip/documentation/code/adding-an-env.md)
- [API](https://clinical-genomics.gitbook.io/project-mip/documentation/api.md)
- [Define Parameters](https://clinical-genomics.gitbook.io/project-mip/documentation/api/define-parameters.md)
- [Download References](https://clinical-genomics.gitbook.io/project-mip/documentation/api/download-references.md)
- [Identifiers](https://clinical-genomics.gitbook.io/project-mip/documentation/api/identifiers.md)
- [Initiation File](https://clinical-genomics.gitbook.io/project-mip/documentation/api/initiation-file.md)
- [Install](https://clinical-genomics.gitbook.io/project-mip/documentation/api/install.md)
- [IO](https://clinical-genomics.gitbook.io/project-mip/documentation/api/io.md)
- [Modules](https://clinical-genomics.gitbook.io/project-mip/documentation/api/modules.md)
- [Path](https://clinical-genomics.gitbook.io/project-mip/documentation/api/path.md)
- [Pedigree](https://clinical-genomics.gitbook.io/project-mip/documentation/api/pedigree.md)
- [QC metrics](https://clinical-genomics.gitbook.io/project-mip/documentation/api/qc_metrics.md)
- [Sample info](https://clinical-genomics.gitbook.io/project-mip/documentation/api/sample_info.md)
- [Tests](https://clinical-genomics.gitbook.io/project-mip/documentation/api/tests.md)
- [Log](https://clinical-genomics.gitbook.io/project-mip/documentation/api/tests/log.md)
- [Data](https://clinical-genomics.gitbook.io/project-mip/documentation/api/tests/data.md)
- [Subroutines](https://clinical-genomics.gitbook.io/project-mip/documentation/api/subroutines.md)
- [Cli](https://clinical-genomics.gitbook.io/project-mip/documentation/cli.md)