LisaVial/torus_ephys
1
0
Fork 0
Code Issues Pull Requests Releases Wiki Activity

still struggling

Browse Source
This commit is contained in:
Lisa 2019-07-01 15:20:00 +02:00
parent 62740c692a
commit 646eaccb9b
1 changed files with 13 additions and 11 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

24
ephys_analysis.py
View File

@ -17,8 +17,8 @@ def analyze_sams(filename):
rtag_data.metadata.pprint(max_depth=-1) rtag_data.metadata.pprint(max_depth=-1)
print(40*'*') print(40*'*')
stim_tag = g.multi_tags[0] stim_tag = g.multi_tags[0]
stim_pos = stim_tag.positions[:] stim_pos = stim_tag.positions[:] # beginnings of stimulations
stim_extent = stim_tag.extents[:] stim_extent = stim_tag.extents[:] # duration of stimulations
for r in rtag_data.references: for r in rtag_data.references:
print(r.name, r.type) print(r.name, r.type)
@ -27,24 +27,26 @@ def analyze_sams(filename):
spike_data = [] spike_data = []
for i in range(len(stim_pos)): for idx in range(len(stim_pos)):
spike_data.append(stim_tag.retrieve_data(i, 'Spikes-1')[:]) spike_data.append(stim_tag.retrieve_data(idx, 'Spikes-1')[:])
dims = [[]] * len(voltage_trace) # dims = [[]] * len(spike_data)
for j in range(len(spike_data)): # for j in range(len(spike_data)):
dims[j] = voltage_trace.dimensions[j] # dims[j] = spike_data.dimensions[j]
print(spike_data, len(spike_data)) # print(spike_data, len(spike_data))
# embed()
# exit()
f.close() f.close()
return stim_pos, stim_extent, spike_data, voltage_trace, dims return stim_pos, stim_extent, spike_data, voltage_trace
if __name__ == '__main__': if __name__ == '__main__':
data_dir = '/home/lisa/data' data_dir = '/home/lisa/data'
data_set = '2019-06-24-aa-invivo-1' data_set = '2019-06-24-aa-invivo-1'
stim_pos, stim_extent, spike_data, voltage_trace, dims = analyze_sams(os.path.join(data_dir, data_set, data_set + '.nix')) stim_pos, stim_extent, spike_data, voltage_trace = analyze_sams(os.path.join(data_dir, data_set, data_set + '.nix'))
for i in range(len(stim_pos)): for i in range(len(stim_pos)):
plt.eventplot(dims[i], spike_data[i]) plt.scatter(voltage_trace.dimensions[i].axis(1000), spike_data[i][:1000])
plt.show() plt.show()
# spikes = stim_tag.retrieve_data(i, 'Spikes-1')[:] # spikes = stim_tag.retrieve_data(i, 'Spikes-1')[:]
# print(spikes) # print(spikes)