Originally created and currently maintained by Sean Martin and Gao Xiang Ham.
Full API documentation for bvmpc is available at https://seankmartin.github.io/Claustrum_Experiment/html/bvmpc/index.html which was created using pdoc3 from Python docstrings.
Various batch scripts and helper files. Of real note, the control scripts bv_control.py and bv_ctl_lfp.py should be considered the main entry point.
Basic style scripts to run with DACQUSB as control scripts
Files in the .MPC language and our own pmpc custom language which is parsed into .MPC using parse_mpc.py
html documentation on the bvmpc module.
Configuration files for the control scripts.
A python module to analyse the behavioural task we designed using Axona and MedPC ouptuts. The module should be generic enough to provide a basis for working with this kind of task in the future. Can be installed by typing pip install . in this directory.
bvmpc contains a number of modules, which are roughly described here:
- bv_analyse.py - An assorted set of behavioural analyses.
- bv_array_methods.py - Helper functions for performing simple routines on lists and NumPy arrays.
- bv_axona.py - Read Axona .inp files and Axona .set files.
- bv_batch.py - Holds batch related functions. For example, plotting the performance of an animal across multiple days.
- bv_file.py - File reading and conversion functions for behavioural data.
- bv_mne.py - Interfacing with the MNE python library.
- bv_nc.py - Interfacing with NeuroChaT and phy and spikeinterface.
- bv_plot.py - Plotting utilities and also some behavioural plots.
- bv_session.py - Holds all of the routines related to single behavioural sessions from MEDPC, Axona, HDF5, and neo.
- bv_session_extractor.py - Holds all of the routines related to parsing multiple sessions out of a single MedPC file into a list.
- bv_session_info.py - This is used to hold metadata and setup information about the MEDPC and Axona behavioural sessions. For example, it denotes which I/O pins are used in an experiment and what they represent.
- bv_utils.py - An assorted set of utility functions for simple but widely used functionality.
- compare_lfp.py - Compare lfp signals to check their similarity.
- lfp_coherence.py - Coherence, Wavelet coherence, mean vector length, and other similar LFP calculations.
- lfp_odict.py - Store Neurochat LFP signals in a dictionary to ease multi-channel analysis.
- lfp_plot.py - Plot things such as coherence and power spectrum.