EXTRACT is a tractable and robust automated cell extraction tool for calcium imaging, which extracts the activities of cells as time series from both one-photon and two-photon calcium imaging movies.
trace_output_option: EXTRACT has two options for trace output: 'raw' and 'nonneg'. 'nonneg' outputs only the signal portion of the trace, consistent with the fundamental assumptions of EXTRACT. 'raw' outputs signal + noise. Default: 'nonneg'.
However, when we look at the default config, we find:
>> config = get_defaults([]);
>> config.trace_output_option
ans =
'baseline_adjusted'
in this file, we find the following:
However, when we look at the default config, we find:
which is not referred to in the docs