gin commit from andrey-UX510UXK

New files: 5

data_colab/#8235_iso_minidataset/suite2p/plane0/F.npy

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+/annex/objects/MD5-s14709528--9002d069456ce31d1999393fa4e307a5

data_colab/#8235_iso_minidataset/suite2p/plane0/Fneu.npy

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+/annex/objects/MD5-s14709528--a276ede926aa2da6b48ddc0bdf34ad8c

data_colab/generate_data.py

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+import numpy as np
+
+import os
+
+import pandas as pd
+
+################################################################
+######## Analysis pipeline for concatenated recordings #########
+################################################################
+
+path = "/media/andrey/My Passport/GIN/backup_Anesthesia_CA1/calcium imaging transition state/concatenated/8235/20201103_GCaMP6f_8235_isoflurane/suite2p/plane0"
+
+
+Traces = np.load(path + '/F.npy', allow_pickle=True)
+Npil = np.load(path + '/Fneu.npy', allow_pickle=True)
+iscell = np.load(path + '/iscell.npy', allow_pickle=True)
+
+print(Traces.shape, type(Traces))
+print(Npil.shape, type(Npil))
+print(iscell.shape, type(iscell))
+
+#path_excel_rec = str(meta_data['Folder'][recording] + meta_data['Subfolder'][recording] + 'suite2p/plane0')
+if not os.path.exists('#8235_iso_minidataset'):
+    os.mkdir("./#8235_iso_minidataset")
+
+if not os.path.exists('#8235_iso_minidataset/suite2p'):
+    os.mkdir("./#8235_iso_minidataset/suite2p")
+
+if not os.path.exists('#8235_iso_minidataset/suite2p/plane0'):
+    os.mkdir("./#8235_iso_minidataset/suite2p/plane0")
+
+
+np.save('#8235_iso_minidataset/suite2p/plane0/F.npy',Traces[:50,:])
+np.save('#8235_iso_minidataset/suite2p/plane0/Fneu.npy',Npil[:50,:])
+np.save('#8235_iso_minidataset/suite2p/plane0/iscell.npy',iscell[:50,:])
+
+
+meta_data = pd.read_excel("../meta_data/meta_recordings_transition_state.xlsx")
+
+meta_data = meta_data[meta_data.Mouse_all == 8235]
+
+meta_data.index = np.arange(meta_data.shape[0])
+
+meta_data["Number"] = meta_data.index
+
+print(np.arange(meta_data.shape[0]))
+
+meta_data.Folder = "/media/andrey/My Passport/GIN/Anesthesia_CA1/data_colab/"
+
+meta_data.Subfolder = "#8235_iso_minidataset/"
+
+meta_data.to_excel("./#8235_iso_minidataset/meta_recordings_8235.xlsx")
+
+