Skip to contents

Spontaneous current data pruned to a summary point per minute

Source: R/Sample-datasets.R
sample_pruned_sEPSC_df.Rd

This is an example of the dataframe of spontaneous currents produced using make_pruned_EPSC_data(). This dataset is a list with three dataframes containing the pruned data. It can be used for further statistical analyses or for plotting. plot_raw_current_data() and plot_summary_current_data() in particular depend heavily on this type of dataset.

Format

An list of 3 dataframes: individual_cells, for_table and all_cells.

individual_cells is used to make pruned plots of individual recordings using plot_raw_current_data(). letter, category, sex, treatment, etc. Information about cell characteristics, which has automatically been pulled from cell_characteristics_df in [add_new_cells(). For a definition of these columns, please see the Required basic columns section in the documentation for make_normalized_EPSC_data(). interval_pruned A character value describing the interval that was used for the pruning function. If the data are pruned per minute, this will be "t0to1", "t1to2", "t2to3", etc. mean_amplitude The mean normalized amplitude (% Baseline sEPSC amplitude) of all spontaneous currents during a specific interval. mean_raw_amplitude The mean raw amplitude (pA) of all spontaneous currents during a specific interval. sd_amplitude The standard deviation of the normalized spontaneous current amplitudes. n The number of data points used. frequency The frequency of the spontaneous currents (Hz) within the interval. se The standard error of the normalized spontaneous current amplitudes. baseline_range A logical value required to normalize frequency relative to the mean baseline frequency. It is set to TRUE when time is within the baseline period (e.g. time <= 5) and FALSE at all other times. Generated automatically in make_normalized_EPSC_data(). baseline_mean_frequency The mean frequency of the spontaneous currents during the baseline period. frequency_transformed The normalized spontaneous current frequency (% Baseline frequency). time The upper time value of the interval (e.g. 2 minutes for "t1to2") which is used on the x-axis of plots such as in plot_raw_current_data(). for_table A dataframe containing two columns: letter and spont_amplitude_transformed. The current data is collapsed into a single row for each letter, with the current data for each letter stored as a list. This is required to create sparklines of current amplitude over time within the cell summary table. See make_interactive_summary_table(). all_cells A dataframe consisting of all data within a single treatment grouped and summarized per minute (or some other variable if you change interval_length to be something other than 1). Columns like category and sex are retained from the raw data. New columns for spontaneous current data (current_type == "sEPSC") are: interval_pruned A character value describing the interval that was used for the pruning function. If the data are pruned per minute, this will be "t0to1", "t1to2", "t2to3", etc. mean_all_amplitude The mean normalized amplitude (% Baseline sEPSC amplitude) of the spontaneous current amplitudes during a specific interval across all cells. mean_all_raw_amplitude The mean raw amplitude (in pA) of the spontaneous current amplitudes during a specific interval across all cells. sd_all_amplitude The standard deviation of the normalized spontaneous current amplitudes across all cells. n The number of data points used. se_all_amplitude The standard error of the normalized spontaneous currents across all cells. sd_all_raw_amplitude The standard deviation of the raw spontaneous current amplitudes across all cells. se_raw_amplitude The standard error of the raw spontaneous currents across all cells. mean_all_frequency The mean normalized frequency (% Baseline frequency) of all spontaneous current amplitudes across all cells during the interval. sd_all_frequency The standard deviation of the normalized frequency of all spontaneous current amplitudes across all cells during the interval. se_frequency The standard error of the normalized frequency of all spontaneous current amplitudes across all cells during the interval. mean_all_raw_frequency The mean raw frequency (Hz) of all spontaneous current amplitudes across all cells during the interval. sd_all_raw_frequency The standard deviation of the raw frequency of all spontaneous current amplitudes across all cells during the interval. se_raw_frequency The standard error of the raw frequency of all spontaneous current amplitudes across all cells during the interval.

Details