File Layout

Required Base Layout

This is the base layout required to start running the code from the parser main. See the parser main page for a complete lists of current supported parsing formats.

Project_ABC
    ├──ABC001_labels.csv
    ├──ABC###_labels.csv
    ├──parser_config.csv
    ├──raw
    |    ├──ABC001
    |    |    └──supported raw file format (plx/pl2, rhs/rhd, etc)
    |    ├──ABC###
    |    |    └──supported raw file format (plx/pl2, rhs/rhd, etc)

Example Output Layout

This file layout is a verbose example layout after running both parsers and the different analysis pipelines (psth, mnts, and continuous). This is subject to change in future iterations of code.

Project_ABC_experiment
    ├──ABC001_labels.csv
    ├──ABC###_labels.csv
    ├──mnts_config.csv
    ├──parser_config.csv
    ├──psth_config.csv
    ├──continuous_config.csv
    ├──raw
    |    ├──ABC001
    |    |    ├──*.rhd
    |    |    └──*.plx
    |    ├──ABC###
    |    |    ├──*.rhs
    |    |    └──*.plx
    ├──parsed_spike
    |    ├──ABC001
    |    |    ├──*.mat
    |    |    └──ABC001_labels_log.csv
    |    ├──ABC###
    |    |    ├──*.mat
    |    |    └──ABC001_labels_log.csv
    |    └──parser_config_log.csv
    ├──psth
    |    ├──data
    |    |    ├──ABC001
    |    |    |    ├──*.mat
    |    |    |    └──ABC001_log.csv
    |    |    ├──ABC###
    |    |    |    ├──*.mat
    |    |    |    └──ABC###_log.csv
    |    ├──rec_field
    |    |    ├──ABC001
    |    |    |    ├──*.mat
    |    |    |    └──ABC001_log.csv
    |    |    ├──ABC###
    |    |    |    ├──*.mat
    |    |    |    └──ABC###_log.csv
    |    ├──classifier
    |    |    ├──ABC001
    |    |    |    ├──*.mat
    |    |    |    └──ABC001_log.csv
    |    |    ├──ABC###
    |    |    |    ├──*.mat
    |    |    |    └──ABC###_log.csv
    |    ├──normalized_variance
    |    |    ├──ABC001
    |    |    |    ├──*.mat
    |    |    |    └──ABC001_log.csv
    |    |    ├──ABC###
    |    |    |    ├──*.mat
    |    |    |    └──ABC###_log.csv
    |    ├──mutual_info
    |    |    ├──ABC001
    |    |    |    ├──*.mat
    |    |    |    └──ABC001_log.csv
    |    |    ├──ABC###
    |    |    |    ├──*.mat
    |    |    |    └──ABC###_log.csv
    |    ├──psth_graphs
    |    ├──receptive_field_results.csv
    |    ├──normalized_variance_results.csv
    |    ├──pop_classifier_results.csv
    |    ├──unit_classifier_results.csv
    |    └──psth_config_log.csv
    ├──MNTS
    |    ├──data
    |    |    ├──ABC001
    |    |    |    ├──*.mat
    |    |    |    └──ABC001_log.csv
    |    |    ├──ABC###
    |    |    |    ├──*.mat
    |    |    |    └──ABC###_log.csv
    |    ├──ica
    |    |    ├──ABC001
    |    |    |    ├──*.mat
    |    |    |    └──ABC001_log.csv
    |    |    ├──ABC###
    |    |    |    ├──*.mat
    |    |    |    └──ABC###_log.csv
    |    ├──pca
    |    |    ├──ABC001
    |    |    |    ├──*.mat
    |    |    |    └──ABC001_log.csv
    |    |    ├──ABC###
    |    |    |    ├──*.mat
    |    |    |    └──ABC###_log.csv
    ├──ica_psth (same layout as psth above)
    ├──pca_psth (same layout as psth above)
    ├──parsed_continuous
    |    ├──ABC001
    |    |    ├──*.mat
    |    |    └──ABC001_labels_log.csv
    |    ├──ABC###
    |    |    ├──*.mat
    |    |    └──ABC001_labels_log.csv
    |    └──parser_config_log.csv
    ├──continuous
    |    ├──filtered_data
    |    |    ├──ABC001
    |    |    |    ├──*.mat
    |    |    |    └──ABC001_log.csv
    |    |    ├──ABC###
    |    |    |    ├──*.mat
    |    |    |    └──ABC###_log.csv
    |    ├──sep
    |    |    ├──sep_formatted_data
    |    |    |    ├──ABC001
    |    |    |    |    ├──*.mat
    |    |    |    |    └──ABC001_log.csv
    |    |    |    ├──ABC###
    |    |    |    |    ├──*.mat
    |    |    |    |    └──ABC###_log.csv
    |    |    ├──sep_gui_data
    |    |    |    ├──ABC001
    |    |    |    |    └──*.mat
    |    |    |    ├──ABC###
    |    |    |    |    └──*.mat
    |    |    |    └──sep_results.csv
    |    |    ├──sep_autoanalysis_data
    |    |    |    ├──ABC001
    |    |    |    |    ├──*.mat
    |    |    |    |    └──ABC001_log.csv
    |    |    |    ├──ABC###
    |    |    |    |    ├──*.mat
    |    |    |    |    └──ABC###_log.csv