The loren_frank_data_processing package imports Matlab data processed by Loren Frank's lab into a friendly python format using pandas.

In order to use, the data must follow the format proscribed in this wiki.

Features

• Takes advantages of pandas DataFrame, a expressive labeled data format, and associated data manipulation and alignment tools.
• Time is encoded as pandas Timedelta, which avoids funny business with representing time series as floating points.
• Handy utility for reshaping time series relative to events of interest (reshape_to_segments)

pip install loren_frank_data_processing

OR

conda install -c edeno loren_frank_data_processing

loren_frank_data_processing requires:

• python>=3.5
• numpy
• scipy
• pandas
• xarray (only if using features from the saving module)
• netcdf4 (only if using features from the saving module)

See environment.yml for the most current list of dependencies.

1. Find all recording epochs:

from collections import namedtuple from os.path import join from loren_frank_data_processing import make_epochs_dataframe ROOT_DIR = 'example/path' RAW_DATA_DIR = join(ROOT_DIR, 'Raw-Data') Animal = namedtuple('Animal', {'directory', 'short_name'}) ANIMALS = { 'HPa': Animal(directory=join(RAW_DATA_DIR, 'HPa_direct'), short_name='HPa'), } epoch_info = make_epochs_dataframe(ANIMALS) epoch_info 

2. We can filter by epoch type:

epoch_info.loc[epoch_info.type == 'run']

3. We can use the epoch_info index to access the tetrode information for a recording session.

epoch_info.loc[epoch_info.type == 'run'].index.tolist() Out: [('HPa', 1, 2), ('HPa', 1, 4), ('HPa', 1, 6), ('HPa', 2, 2), ('HPa', 2, 4), ('HPa', 3, 2), ('HPa', 3, 4), ('HPa', 4, 2), ('HPa', 4, 4), ('HPa', 5, 2), ('HPa', 5, 4), ('HPa', 6, 2), ('HPa', 6, 4), ('HPa', 7, 2), ('HPa', 7, 4), ('HPa', 8, 2), ('HPa', 8, 4)] from loren_frank_data_processing import make_tetrode_dataframe epoch_key = ('HPa', 1, 2) tetrode_info = make_tetrode_dataframe(ANIMALS) tetrode_info.xs(epoch_key, drop_level=False)

Similarly, the index for the tetrode info can be used as a key to access LFP information