preparing_datasets.md

Preparing datasets

To use MountainSort with your own data, you should prepare datasets in the following directory structure:

study_directory/
  dataset1/
    raw.mda
    geom.csv
    params.json
  dataset2/
    ...

where study_directory, dataset1, dataset2, ... can be replaced by names of your choosing (don't use spaces in the file names).

raw.mda is the M x N timeseries array in mda format, where M is the number of channels and N is the number of timepoints.

geom.csv represents the probe geometry and is a comma-separated text file containing 2-d or 3-d coordinates of the electrodes. The number of lines (or rows) in geom.csv should equal M, the number of channels. For example:

0,0
20,0
0,20
20,20

params.json is a JSON format file containing dataset-specific parameters, including samplerate (in Hz) and spike_sign (-1, 0, or 1). For example:

{
  "samplerate":30000,
  "spike_sign":-1
}