Configuration - epigen/MrBiomics GitHub Wiki
Configure your analysis
This depends on the module and is always described in a separate README.md
located in the module's config
folder (i.e., {module}/config/README.md
). Most often it is 1 configuration file (.yaml
) for configuring the analysis (e.g., parameters) and 1-2 annotation files (.csv
) describing the data or data-specific configurations (e.g., file paths or metadata).
[!TIP] We strongly recommend using Snakecase (e.g.,
snake_case
) or Camelcase (e.g.,camelCase
) for (sample/column) names or variables to avoidR
-related complications (i.e., avoid dots.
or hyphens-
).
Configure your workflow
Specify workflow-specific resources
or command line arguments (CLI) in the workflow-profile {module}/workflow/profiles/default.config.yaml
, which supersedes global Snakemake profiles.