Command Line Interface¶
diameter-synthesis¶
Cli to learn and generate diameters of neurons.
diameter-synthesis [OPTIONS] COMMAND [ARGS]...
Options
- --version¶
Show the version and exit.
plot_diff¶
Plot original and new neurons as well as their differences.
diameter-synthesis plot_diff [OPTIONS]
Options
- --orig-path <orig_path>¶
Required Path to original cells
- --diam-path <diam_path>¶
Required Path to diametrized cells
- -o, --out-dir <out_dir>¶
Required Directory to output the analysis results
- -n, --ncells <ncells>¶
Max number of cells to plot
- -e, --ext <ext>¶
Figures extension
run_analysis¶
Produce figures for validation/analysis.
diameter-synthesis run_analysis [OPTIONS]
Options
- --orig-path <orig_path>¶
Required Path to original cells
- --diam-path <diam_path>¶
Required Path to diametrized cells
- --mtypes-file <mtypes_file>¶
Path to mtypes file
- -o, --out-dir <out_dir>¶
Required Directory to output the analysis results
- --cumulative¶
Cumulative distribution plots
- --individual¶
Output a plot for each neuron
- --violin¶
Violin distribution plots
- -e, --ext <ext>¶
Figures extension
run_diameters¶
Build new diameters from config file and diameter model.
diameter-synthesis run_diameters [OPTIONS] CONFIG_FILE MODELS_PARAMS_FILE
Arguments
- CONFIG_FILE¶
Required argument
- MODELS_PARAMS_FILE¶
Required argument
run_models¶
Run the model extraction from config file.
diameter-synthesis run_models [OPTIONS] CONFIG_FILE
Options
- --plot¶
- --ext <ext>¶
Arguments
- CONFIG_FILE¶
Required argument