pipeline

Automatic execution of consecutive analysis steps. Especially useful for analyzing many spectral files across multiple experimental conditions, see this tutorial for more information.

Usage

philosopher pipeline [flags] [folders]

Flags

--config

Configuration file for the pipeline execution.

--print

Print the pipeline configuration file.

Example

philosopher pipeline --config philosopher.yaml folder1/ folder2/ folder3

FAQ

How do I set the steps I want to run ?

Your configuration file (philosopher.yaml) contains the steps you want to execute and their respective parameters. You need to change the steps from no to yes in order to include them in your analysis. After that, check the parameters within each section and customize them for your analysis.