Inputs and parameters

Inputs and parameters#

— UNDER CONSTRUCTION —

Setting up run_track2p.py#

  • track_ops.all_ds_path: list of paths to datasets containing a suite2p folder

  • track_ops.save_path: where the outputs will be saved (a track2p folder will be generated here)

  • track_ops.reg_chan : channel to use for registration (0=functional, 1=anatomical)

Supplementary track.ops parameters (GUI)#

  • track_ops.colors: It’s a color vector assigning a specific color to each cell. When the user opens a track2Pp dataset, each cell retains the same color at each opening. A vector is created per plane colors_plane_x

  • track_ops.save_in_s2p_format : allows to generate the suite2p files containing only the cells present on every day

  • track_ops.vector_curation : It is a vector of the length of the number of cells found every day by our algorithm. It represents the state of each cell, varying between 0 and 1, where 0 means that it is considered “not cell” by the user, and 1 means that it is recognized as a “cell”. It is appallingly updated by the user’s choice. A vector is created per plane vector_curation_plane_x

(for basic documentation see comments in track2p/ops/default.py, more documentation will be added soon).

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