cluster_features_cli

cluster_features_cli

Command line interface to the spectra-cluster cluster as features tool. This tool extracts the clusters and samples found in the dataset and exports a table where each sample is represented as a column and each cluster as a row. The cells then contain the number of spectra observed from the given sample in the given cluster.

Usage:

cluster_features_cli.py –input=<results.clustering> –output=<features.txt>

[–min_size=<size>] [–min_ratio=<ratio>] [–min_identified=<spectra>]

cluster_features_cli.py (–help | –version)

Options:

-i, --input=<clustering file>
	Path to the .clustering result file to process.
-o, --output=<features.txt>
	Path to the output file that should be created. The output will be formatted as a tab-delimited text file.
--min_size=<size>
	The minimum size of a cluster to be reported.
--min_ratio=<ratio>
	The minimum ratio a cluster must have to be reported.
--min_identified=<spectra>
	May specify the minimum number of identified spectra a cluster must have.
-h, --help	Print this help message.
-v, --version	Print the current version.