LICENSE
README.md
setup.py
snudda/__init__.py
snudda/cli.py
snudda/core.py
snudda/help.py
snudda.egg-info/PKG-INFO
snudda.egg-info/SOURCES.txt
snudda.egg-info/dependency_links.txt
snudda.egg-info/entry_points.txt
snudda.egg-info/requires.txt
snudda.egg-info/top_level.txt
snudda/analyse/__init__.py
snudda/analyse/analyse.py
snudda/analyse/analyse_gap_junction_coupling.py
snudda/analyse/analyse_input.py
snudda/analyse/analyse_neuroinformatics2020.py
snudda/analyse/analyse_spike_trains.py
snudda/analyse/analyse_striatum.py
snudda/analyse/analyse_synapse_location.py
snudda/analyse/analyse_topology.py
snudda/analyse/analyse_topology_activity.py
snudda/analyse/spike_time_tiling_coefficient.py
snudda/data/InputAxons/Cortex/AA0059.swc
snudda/data/InputAxons/Cortex/Reg10/AA0059-reg10.swc
snudda/data/InputAxons/Cortex/Reg15/AA0059-reg15.swc
snudda/data/InputAxons/Cortex/Reg5/AA0059-reg5.swc
snudda/data/InputAxons/GPe2Striatum/example-projection-config.json
snudda/data/InputAxons/GPe2Striatum/prototypical-axon.swc
snudda/data/InputAxons/Thalamus/AA0054.swc
snudda/data/InputAxons/Thalamus/Reg10/AA0054-reg10.swc
snudda/data/InputAxons/Thalamus/Reg15/AA0054-reg15.swc
snudda/data/InputAxons/Thalamus/Reg5/AA0054-reg5.swc
snudda/data/density/1001_STRd_Sst_dens.csv
snudda/data/density/1001_STRd_Sst_dens_smooth.csv
snudda/data/density/252_STRd_Chat_dens.csv
snudda/data/density/252_STRd_Chat_dens_smooth.csv
snudda/data/density/352_STRd_Drd1_dens.csv
snudda/data/density/352_STRd_Drd1_dens_smooth.csv
snudda/data/density/72109410_STRd_Adora2a_dens.csv
snudda/data/density/72109410_STRd_Adora2a_dens_smooth.csv
snudda/data/density/79556738_STRd_Pvalb_dens.csv
snudda/data/density/79556738_STRd_Pvalb_dens_smooth.csv
snudda/data/density/combine_densities.py
snudda/data/density/dorsal_striatum_density.json
snudda/data/experiment_config/pair_recording/experiment-config-1.json
snudda/data/experiment_config/pair_recording/experiment-config-2.json
snudda/data/experiment_config/pair_recording/experiment-config-3.json
snudda/data/experiment_config/pair_recording/experiment-config-4.json
snudda/data/experiment_config/pair_recording/experiment-config-5.json
snudda/data/experiment_config/pair_recording/experiment-config-6.json
snudda/data/experiment_config/pair_recording/experiment-config-7.json
snudda/data/images/snudda-video-qr-code.png
snudda/data/input_config/external-input-dSTR-scaled-v2.json
snudda/data/input_config/external-input-dSTR-scaled-v3.json
snudda/data/input_config/external-input-dSTR-scaled-v3b.json
snudda/data/input_config/external-input-dSTR-scaled-v4-cluster-test.json
snudda/data/input_config/external-input-dSTR-scaled-v4.json
snudda/data/input_config/external-input-dSTR-scaled.json
snudda/data/input_config/input-tinytest-ChIN.json
snudda/data/input_config/input-tinytest-Channel-Activation.json
snudda/data/input_config/input-tinytest-channel-1.json
snudda/data/input_config/input-tinytest-channel-2.json
snudda/data/input_config/input-tinytest-v7.json
snudda/data/input_config/input-tinytest-v8.json
snudda/data/input_config/input-tinytest-v9-freq-vectors.json
snudda/data/input_config/input-v10-scaled.json
snudda/data/input_config/input_output_dspn_template_IC.json
snudda/data/input_config/Kim2019/Kim et al., 2019 - Henry Yin - Extended2a.csv
snudda/data/input_config/Kim2019/Kim et al., 2019 - Henry Yin - Extended2a.xlsx
snudda/data/input_config/Kim2019/get_experimental_firing_freq.py
snudda/data/mesh/GPe-left.obj
snudda/data/mesh/GPe-right.obj
snudda/data/mesh/GPe.obj
snudda/data/mesh/GPi-left.obj
snudda/data/mesh/GPi-right.obj
snudda/data/mesh/GPi.obj
snudda/data/mesh/SNc-left.obj
snudda/data/mesh/SNc-right.obj
snudda/data/mesh/SNc.obj
snudda/data/mesh/SNr-left.obj
snudda/data/mesh/SNr-right.obj
snudda/data/mesh/SNr.obj
snudda/data/mesh/STN-left.obj
snudda/data/mesh/STN-right.obj
snudda/data/mesh/STN.obj
snudda/data/mesh/Striatum-d-left.obj
snudda/data/mesh/Striatum-d-right.obj
snudda/data/mesh/Striatum-d.obj
snudda/data/mesh/Striatum-dorsal-left-hemisphere.obj
snudda/data/mesh/Striatum-dorsal-right-hemisphere.obj
snudda/data/mesh/Striatum-v-left.obj
snudda/data/mesh/Striatum-v-right.obj
snudda/data/mesh/Striatum-v.obj
snudda/data/mesh/cut_mesh.py
snudda/data/mesh/get_mesh.ipynb
snudda/data/nest/models/FS.json
snudda/data/nest/models/dSPN.json
snudda/data/nest/models/iSPN.json
snudda/data/nest/synapses/excitatory.json
snudda/data/nest/synapses/excitatory_distal.json
snudda/data/nest/synapses/excitatory_proximal.json
snudda/data/nest/synapses/excitatory_soma.json
snudda/data/nest/synapses/inhibitory.json
snudda/data/nest/synapses/inhibitory_distal.json
snudda/data/nest/synapses/inhibitory_proximal.json
snudda/data/nest/synapses/inhibitory_soma.json
snudda/data/neurons/mechanisms/Im_ms.mod
snudda/data/neurons/mechanisms/Kv3_ch.mod
snudda/data/neurons/mechanisms/NO.mod
snudda/data/neurons/mechanisms/bk_ch.mod
snudda/data/neurons/mechanisms/bk_fs.mod
snudda/data/neurons/mechanisms/bk_ms.mod
snudda/data/neurons/mechanisms/ca_ch.mod
snudda/data/neurons/mechanisms/cadyn_fs.mod
snudda/data/neurons/mechanisms/cadyn_ms.mod
snudda/data/neurons/mechanisms/cal12_ms.mod
snudda/data/neurons/mechanisms/cal13_ms.mod
snudda/data/neurons/mechanisms/cal_ch.mod
snudda/data/neurons/mechanisms/caldyn_ms.mod
snudda/data/neurons/mechanisms/can_fs.mod
snudda/data/neurons/mechanisms/can_ms.mod
snudda/data/neurons/mechanisms/cap_ch.mod
snudda/data/neurons/mechanisms/caq_fs.mod
snudda/data/neurons/mechanisms/caq_ms.mod
snudda/data/neurons/mechanisms/car_fs.mod
snudda/data/neurons/mechanisms/car_ms.mod
snudda/data/neurons/mechanisms/cat32_ms.mod
snudda/data/neurons/mechanisms/cat33_ms.mod
snudda/data/neurons/mechanisms/concACh.mod
snudda/data/neurons/mechanisms/concDA.mod
snudda/data/neurons/mechanisms/concDAfile.mod
snudda/data/neurons/mechanisms/hcn12_ch.mod
snudda/data/neurons/mechanisms/hd_lts.mod
snudda/data/neurons/mechanisms/im_lts.mod
snudda/data/neurons/mechanisms/it_lts.mod
snudda/data/neurons/mechanisms/kaf_fs.mod
snudda/data/neurons/mechanisms/kaf_lts.mod
snudda/data/neurons/mechanisms/kaf_ms.mod
snudda/data/neurons/mechanisms/kas_fs.mod
snudda/data/neurons/mechanisms/kas_ms.mod
snudda/data/neurons/mechanisms/kcnq_ch.mod
snudda/data/neurons/mechanisms/kdb_lts.mod
snudda/data/neurons/mechanisms/kdr_fs.mod
snudda/data/neurons/mechanisms/kdr_lts.mod
snudda/data/neurons/mechanisms/kdr_ms.mod
snudda/data/neurons/mechanisms/kdrb_lts.mod
snudda/data/neurons/mechanisms/kir23_ch.mod
snudda/data/neurons/mechanisms/kir23_lts.mod
snudda/data/neurons/mechanisms/kir2_ch.mod
snudda/data/neurons/mechanisms/kir_fs.mod
snudda/data/neurons/mechanisms/kir_ms.mod
snudda/data/neurons/mechanisms/kv2_ch.mod
snudda/data/neurons/mechanisms/kv4_ch.mod
snudda/data/neurons/mechanisms/na2_ch.mod
snudda/data/neurons/mechanisms/na3_lts.mod
snudda/data/neurons/mechanisms/na_ch.mod
snudda/data/neurons/mechanisms/naf_fs.mod
snudda/data/neurons/mechanisms/naf_lts.mod
snudda/data/neurons/mechanisms/naf_ms.mod
snudda/data/neurons/mechanisms/par_ggap.mod
snudda/data/neurons/mechanisms/sk_ch.mod
snudda/data/neurons/mechanisms/sk_fs.mod
snudda/data/neurons/mechanisms/sk_ms.mod
snudda/data/neurons/mechanisms/tmampa.mod
snudda/data/neurons/mechanisms/tmgabaa.mod
snudda/data/neurons/mechanisms/tmglut.mod
snudda/data/neurons/mechanisms/tmglut_M1RH_D1.mod
snudda/data/neurons/mechanisms/tmglut_double.mod
snudda/data/neurons/mechanisms/tmnmda.mod
snudda/data/neurons/mechanisms/vecevent.mod
snudda/data/neurons/mechanisms.OLD/Kv3_ch.mod
snudda/data/neurons/mechanisms.OLD/bk_ch.mod
snudda/data/neurons/mechanisms.OLD/bk_fs.mod
snudda/data/neurons/mechanisms.OLD/bk_ms.mod
snudda/data/neurons/mechanisms.OLD/ca_ch.mod
snudda/data/neurons/mechanisms.OLD/cadyn_fs.mod
snudda/data/neurons/mechanisms.OLD/cadyn_ms.mod
snudda/data/neurons/mechanisms.OLD/cal12_ms.mod
snudda/data/neurons/mechanisms.OLD/cal13_ms.mod
snudda/data/neurons/mechanisms.OLD/cal_ch.mod
snudda/data/neurons/mechanisms.OLD/caldyn_ms.mod
snudda/data/neurons/mechanisms.OLD/can_fs.mod
snudda/data/neurons/mechanisms.OLD/can_ms.mod
snudda/data/neurons/mechanisms.OLD/cap_ch.mod
snudda/data/neurons/mechanisms.OLD/caq_fs.mod
snudda/data/neurons/mechanisms.OLD/caq_ms.mod
snudda/data/neurons/mechanisms.OLD/car_fs.mod
snudda/data/neurons/mechanisms.OLD/car_ms.mod
snudda/data/neurons/mechanisms.OLD/cat32_ms.mod
snudda/data/neurons/mechanisms.OLD/cat33_ms.mod
snudda/data/neurons/mechanisms.OLD/h_lts.mod
snudda/data/neurons/mechanisms.OLD/hcn12_ch.mod
snudda/data/neurons/mechanisms.OLD/im_lts.mod
snudda/data/neurons/mechanisms.OLD/it_lts.mod
snudda/data/neurons/mechanisms.OLD/kaf_fs.mod
snudda/data/neurons/mechanisms.OLD/kaf_ms.mod
snudda/data/neurons/mechanisms.OLD/kas_fs.mod
snudda/data/neurons/mechanisms.OLD/kas_ms.mod
snudda/data/neurons/mechanisms.OLD/kcnq_ch.mod
snudda/data/neurons/mechanisms.OLD/kdr_fs.mod
snudda/data/neurons/mechanisms.OLD/kdr_ms.mod
snudda/data/neurons/mechanisms.OLD/kdrbca1_lts.mod
snudda/data/neurons/mechanisms.OLD/kir2_ch.mod
snudda/data/neurons/mechanisms.OLD/kir_fs.mod
snudda/data/neurons/mechanisms.OLD/kir_ms.mod
snudda/data/neurons/mechanisms.OLD/kv2_ch.mod
snudda/data/neurons/mechanisms.OLD/kv4_ch.mod
snudda/data/neurons/mechanisms.OLD/na2_ch.mod
snudda/data/neurons/mechanisms.OLD/na3n_lts.mod
snudda/data/neurons/mechanisms.OLD/na_ch.mod
snudda/data/neurons/mechanisms.OLD/naf_fs.mod
snudda/data/neurons/mechanisms.OLD/naf_ms.mod
snudda/data/neurons/mechanisms.OLD/par_ggap.mod
snudda/data/neurons/mechanisms.OLD/sk_ch.mod
snudda/data/neurons/mechanisms.OLD/sk_fs.mod
snudda/data/neurons/mechanisms.OLD/sk_ms.mod
snudda/data/neurons/mechanisms.OLD/tmampa.mod
snudda/data/neurons/mechanisms.OLD/tmgabaa.mod
snudda/data/neurons/mechanisms.OLD/tmglut.mod
snudda/data/neurons/mechanisms.OLD/tmnmda.mod
snudda/data/neurons/mechanisms.OLD/vecevent.mod
snudda/data/neurons/striatum/chin/str-chin-e170614_cell6-m17JUL301751_170614_no6_MD_cell_1_x63-v20190710/mechanisms.json
snudda/data/neurons/striatum/chin/str-chin-e170614_cell6-m17JUL301751_170614_no6_MD_cell_1_x63-v20190710/modulation.json
snudda/data/neurons/striatum/chin/str-chin-e170614_cell6-m17JUL301751_170614_no6_MD_cell_1_x63-v20190710/optim_chin_morph_renamed2019-11-08.swc
snudda/data/neurons/striatum/chin/str-chin-e170614_cell6-m17JUL301751_170614_no6_MD_cell_1_x63-v20190710/parameters.json
snudda/data/neurons/striatum/chin/str-chin-e170614_cell6-m17JUL301751_170614_no6_MD_cell_1_x63-v20190710/protocols.json
snudda/data/neurons/striatum/dspn/str-dspn-e150602_c1_D1-mWT-0728MSN01-v20190508/WT-0728MSN01-cor-rep-ax.swc
snudda/data/neurons/striatum/dspn/str-dspn-e150602_c1_D1-mWT-0728MSN01-v20190508/fix_indexing.py
snudda/data/neurons/striatum/dspn/str-dspn-e150602_c1_D1-mWT-0728MSN01-v20190508/mechanisms.json
snudda/data/neurons/striatum/dspn/str-dspn-e150602_c1_D1-mWT-0728MSN01-v20190508/modulation.json
snudda/data/neurons/striatum/dspn/str-dspn-e150602_c1_D1-mWT-0728MSN01-v20190508/modulationDAACh.json
snudda/data/neurons/striatum/dspn/str-dspn-e150602_c1_D1-mWT-0728MSN01-v20190508/parameters.json
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c10_D1-mWT-P270-20-v20190521/WT-P270-20-15ak-cor.swc
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c10_D1-mWT-P270-20-v20190521/mechanisms.json
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c10_D1-mWT-P270-20-v20190521/modulation.json
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c10_D1-mWT-P270-20-v20190521/parameters.json
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c6_D1-m21-6-DE-v20190503/21-6-DE-cor-rep-ax.swc
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c6_D1-m21-6-DE-v20190503/mechanisms.json
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c6_D1-m21-6-DE-v20190503/modulation.json
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c6_D1-m21-6-DE-v20190503/parameters.json
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c9_d1-mWT-1215MSN03-v20190521/WT-1215MSN03-cor-rep-ax2.swc
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c9_d1-mWT-1215MSN03-v20190521/mechanisms.json
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c9_d1-mWT-1215MSN03-v20190521/modulation.json
snudda/data/neurons/striatum/dspn/str-dspn-e150917_c9_d1-mWT-1215MSN03-v20190521/parameters.json
snudda/data/neurons/striatum/fs/str-fs-e160628_FS2-mMTC180800A-IDB-v20190226/MTC180800A-IDB-cor-rep.swc
snudda/data/neurons/striatum/fs/str-fs-e160628_FS2-mMTC180800A-IDB-v20190226/mechanisms.json
snudda/data/neurons/striatum/fs/str-fs-e160628_FS2-mMTC180800A-IDB-v20190226/modulation.json
snudda/data/neurons/striatum/fs/str-fs-e160628_FS2-mMTC180800A-IDB-v20190226/parameters.json
snudda/data/neurons/striatum/fs/str-fs-e161024_FS16-mDR-rat-Mar-13-08-1-536-R-v20190225/DR-rat-Mar-13-08-1-536-R-cor-rep.swc
snudda/data/neurons/striatum/fs/str-fs-e161024_FS16-mDR-rat-Mar-13-08-1-536-R-v20190225/mechanisms.json
snudda/data/neurons/striatum/fs/str-fs-e161024_FS16-mDR-rat-Mar-13-08-1-536-R-v20190225/modulation.json
snudda/data/neurons/striatum/fs/str-fs-e161024_FS16-mDR-rat-Mar-13-08-1-536-R-v20190225/parameters.json
snudda/data/neurons/striatum/fs/str-fs-e161205_FS1-mMTC180800A-IDB-v20190312/MTC180800A-IDB-cor-rep.swc
snudda/data/neurons/striatum/fs/str-fs-e161205_FS1-mMTC180800A-IDB-v20190312/mechanisms.json
snudda/data/neurons/striatum/fs/str-fs-e161205_FS1-mMTC180800A-IDB-v20190312/modulation.json
snudda/data/neurons/striatum/fs/str-fs-e161205_FS1-mMTC180800A-IDB-v20190312/parameters.json
snudda/data/neurons/striatum/fs/str-fs-e180418_FS5-mMTC251001A-IDB-v20190301/MTC251001A-IDB-cor-rep.swc
snudda/data/neurons/striatum/fs/str-fs-e180418_FS5-mMTC251001A-IDB-v20190301/mechanisms.json
snudda/data/neurons/striatum/fs/str-fs-e180418_FS5-mMTC251001A-IDB-v20190301/modulation.json
snudda/data/neurons/striatum/fs/str-fs-e180418_FS5-mMTC251001A-IDB-v20190301/parameters.json
snudda/data/neurons/striatum/ispn/str-ispn-e150908_c4_D2-m51-5-DE-v20190611/51-5-DE-cor-rep-ax.swc
snudda/data/neurons/striatum/ispn/str-ispn-e150908_c4_D2-m51-5-DE-v20190611/mechanisms.json
snudda/data/neurons/striatum/ispn/str-ispn-e150908_c4_D2-m51-5-DE-v20190611/modulation.json
snudda/data/neurons/striatum/ispn/str-ispn-e150908_c4_D2-m51-5-DE-v20190611/parameters.json
snudda/data/neurons/striatum/ispn/str-ispn-e150917_c11_D2-mWT-MSN1-v20190603/WT-MSN1-cor-rep-ax.swc
snudda/data/neurons/striatum/ispn/str-ispn-e150917_c11_D2-mWT-MSN1-v20190603/mechanisms.json
snudda/data/neurons/striatum/ispn/str-ispn-e150917_c11_D2-mWT-MSN1-v20190603/modulation.json
snudda/data/neurons/striatum/ispn/str-ispn-e150917_c11_D2-mWT-MSN1-v20190603/parameters.json
snudda/data/neurons/striatum/ispn/str-ispn-e151123_c1_D2-mWT-P270-09-v20190527/WT-P270-09-15ak-cor.swc
snudda/data/neurons/striatum/ispn/str-ispn-e151123_c1_D2-mWT-P270-09-v20190527/mechanisms.json
snudda/data/neurons/striatum/ispn/str-ispn-e151123_c1_D2-mWT-P270-09-v20190527/modulation.json
snudda/data/neurons/striatum/ispn/str-ispn-e151123_c1_D2-mWT-P270-09-v20190527/parameters.json
snudda/data/neurons/striatum/ispn/str-ispn-e160118_c10_D2-m46-3-DE-v20190529/46-3-DE-cor-rep-ax.swc
snudda/data/neurons/striatum/ispn/str-ispn-e160118_c10_D2-m46-3-DE-v20190529/mechanisms.json
snudda/data/neurons/striatum/ispn/str-ispn-e160118_c10_D2-m46-3-DE-v20190529/modulation.json
snudda/data/neurons/striatum/ispn/str-ispn-e160118_c10_D2-m46-3-DE-v20190529/parameters.json
snudda/data/neurons/striatum/lts/LTS_Experiment-9862_20181211/fix_indexing.py
snudda/data/neurons/striatum/lts/LTS_Experiment-9862_20181211/lts_morp_2019-11-07_centered_no_axon.swc
snudda/data/neurons/striatum/lts/LTS_Experiment-9862_20181211/mechanisms.json
snudda/data/neurons/striatum/lts/LTS_Experiment-9862_20181211/modulation.json
snudda/data/neurons/striatum/lts/LTS_Experiment-9862_20181211/parameters.json
snudda/data/neurons/striatum/lts/LTS_Experiment-9862_20181211/protocols.json
snudda/data/neurons/striatum/lts/LTS_Experiment-9862_20181211/morphologies/lts_morp_2019-11-07_centered_noAxon.swc
snudda/data/synapses/formatinfo.txt
snudda/data/synapses/pair_pulse_experiment_data.json
snudda/data/synapses/example_data/10_MSN12_GBZ_CC_H20.json
snudda/data/synapses/example_data/M1LH-contra_dSPN.json
snudda/data/synapses/striatum/M1LH_Analysis_191001.h5-parameters-FS.json
snudda/data/synapses/striatum/M1LH_Analysis_191001.h5-parameters-LTS.json
snudda/data/synapses/striatum/M1LH_Analysis_191001.h5-parameters-MS.json
snudda/data/synapses/striatum/M1RH_Analysis_190925.h5-parameters-CHAT.json
snudda/data/synapses/striatum/M1RH_Analysis_190925.h5-parameters-FS.json
snudda/data/synapses/striatum/M1RH_Analysis_190925.h5-parameters-LTS.json
snudda/data/synapses/striatum/M1RH_Analysis_190925.h5-parameters-MS.json
snudda/data/synapses/striatum/PlanertFitting-DD-tmgaba-fit.json
snudda/data/synapses/striatum/PlanertFitting-DI-tmgaba-fit.json
snudda/data/synapses/striatum/PlanertFitting-FD-tmgaba-fit.json
snudda/data/synapses/striatum/PlanertFitting-FI-tmgaba-fit.json
snudda/data/synapses/striatum/PlanertFitting-ID-tmgaba-fit.json
snudda/data/synapses/striatum/PlanertFitting-II-tmgaba-fit.json
snudda/data/synapses/striatum/S1_Analysis_191001.h5-parameters-CHAT.json
snudda/data/synapses/striatum/S1_Analysis_191001.h5-parameters-FS.json
snudda/data/synapses/striatum/S1_Analysis_191001.h5-parameters-LTS.json
snudda/data/synapses/striatum/S1_Analysis_191001.h5-parameters-MS.json
snudda/data/synapses/striatum/TH_Analysis_191001.h5-parameters-CHAT.json
snudda/data/synapses/striatum/TH_Analysis_191001.h5-parameters-FS.json
snudda/data/synapses/striatum/TH_Analysis_191001.h5-parameters-MS.json
snudda/data/synapses/striatum/readme.txt
snudda/data/synapses/striatum/partial/trace_table.txt-parameters-DD.json
snudda/data/synapses/striatum/partial/trace_table.txt-parameters-DI.json
snudda/data/synapses/striatum/partial/trace_table.txt-parameters-FD.json
snudda/data/synapses/striatum/partial/trace_table.txt-parameters-FI.json
snudda/data/synapses/striatum/partial/trace_table.txt-parameters-ID.json
snudda/data/synapses/striatum/partial/trace_table.txt-parameters-II.json
snudda/data/synapses/striatum/partial/trace_table.txt-parameters-LI.json
snudda/data/synapses/v1/M1_Analysis_LH_extr_UP.pxp-traceList-FS-require-H20-model-parameters.json
snudda/data/synapses/v1/M1_Analysis_LH_extr_UP.pxp-traceList-LTS-require-H20-model-parameters.json
snudda/data/synapses/v1/M1_Analysis_LH_extr_UP.pxp-traceList-MSND1-require-H20-model-parameters.json
snudda/data/synapses/v1/M1_Analysis_LH_extr_UP.pxp-traceList-MSND2-require-H20-model-parameters.json
snudda/data/synapses/v1/M1_Analysis_RH_extr_UP.pxp-traceList-FS-require-H20-model-parameters.json
snudda/data/synapses/v1/M1_Analysis_RH_extr_UP.pxp-traceList-LTS-require-H20-model-parameters.json
snudda/data/synapses/v1/M1_Analysis_RH_extr_UP.pxp-traceList-MSND1-require-H20-model-parameters.json
snudda/data/synapses/v1/M1_Analysis_RH_extr_UP.pxp-traceList-MSND2-require-H20-model-parameters.json
snudda/data/synapses/v1/S1_Analysis_extr_UP.pxp-traceList-FS-require-H20-model-parameters.json
snudda/data/synapses/v1/S1_Analysis_extr_UP.pxp-traceList-LTS-require-H20-model-parameters.json
snudda/data/synapses/v1/S1_Analysis_extr_UP.pxp-traceList-MSND1-require-H20-model-parameters.json
snudda/data/synapses/v1/S1_Analysis_extr_UP.pxp-traceList-MSND2-require-H20-model-parameters.json
snudda/data/synapses/v1/TH_Analysis_extr_UP.pxp-traceList-CH-require-H20-model-parameters.json
snudda/data/synapses/v1/TH_Analysis_extr_UP.pxp-traceList-FS-require-H20-model-parameters.json
snudda/data/synapses/v1/TH_Analysis_extr_UP.pxp-traceList-MSND1-require-H20-model-parameters.json
snudda/data/synapses/v1/TH_Analysis_extr_UP.pxp-traceList-MSND2-require-H20-model-parameters.json
snudda/data/synapses/v1/trace_table.txt-DD-model-parameters.json
snudda/data/synapses/v1/trace_table.txt-DI-model-parameters.json
snudda/data/synapses/v1/trace_table.txt-FD-model-parameters.json
snudda/data/synapses/v1/trace_table.txt-FI-model-parameters.json
snudda/data/synapses/v1/trace_table.txt-ID-model-parameters.json
snudda/data/synapses/v1/trace_table.txt-II-model-parameters.json
snudda/detect/__init__.py
snudda/detect/detect.py
snudda/detect/project.py
snudda/detect/projection_detection.py
snudda/detect/prune.py
snudda/init/__init__.py
snudda/init/init.py
snudda/init/init_config.py
snudda/init/init_custom.py
snudda/init/init_wojtek.py
snudda/input/__init__.py
snudda/input/input.py
snudda/input/input_tuning.py
snudda/input/inspectinput.py
snudda/input/time_varying_input.py
snudda/input/virtual_input.py
snudda/neuromodulation/__init__.py
snudda/neuromodulation/modulation.py
snudda/neuromodulation/modulation_network.py
snudda/neuromodulation/modulation_synapse.py
snudda/neuromodulation/neuromodulation.py
snudda/neuromodulation/neuromodulation_synapse.py
snudda/neuromodulation/translator.py
snudda/neurons/__init__.py
snudda/neurons/index_tree.py
snudda/neurons/morphology_data.py
snudda/neurons/neuron_model_extended.py
snudda/neurons/neuron_morphology.py
snudda/neurons/neuron_morphology_extended.py
snudda/neurons/neuron_prototype.py
snudda/place/__init__.py
snudda/place/bend_morphologies.py
snudda/place/create_cube_mesh.py
snudda/place/create_slice_mesh.py
snudda/place/place.py
snudda/place/projection_map_finder.py
snudda/place/region_mesh.py
snudda/place/region_mesh_redux.py
snudda/place/rotation.py
snudda/place/volumetric_mapping.py
snudda/plotting/__init__.py
snudda/plotting/plotLTSdensity.py
snudda/plotting/plot_connection_matrix.py
snudda/plotting/plot_connectivity.py
snudda/plotting/plot_cross_correlogram.py
snudda/plotting/plot_degeneration.py
snudda/plotting/plot_degeneration_and_growth.py
snudda/plotting/plot_density.py
snudda/plotting/plot_density_slice.py
snudda/plotting/plot_distance_statistics.py
snudda/plotting/plot_input.py
snudda/plotting/plot_input_locations.py
snudda/plotting/plot_network.py
snudda/plotting/plot_network_simulation.py
snudda/plotting/plot_neuron_voltage.py
snudda/plotting/plot_node_benchmark.py
snudda/plotting/plot_period_experiment.py
snudda/plotting/plot_size_benchmark.py
snudda/plotting/plot_spike_raster_v2.py
snudda/plotting/plot_synapse_distance.py
snudda/plotting/plot_traces.py
snudda/plotting/Blender/__init__.py
snudda/plotting/Blender/io_mesh_swc/__init__.py
snudda/plotting/Blender/io_mesh_swc/operator_swc_import.py
snudda/plotting/Blender/visualisation/__init__.py
snudda/plotting/Blender/visualisation/drawHyperCubeSomas.py
snudda/plotting/Blender/visualisation/drawHyperCubeSomasRender.py
snudda/plotting/Blender/visualisation/drawHyperCubeSomasWithLTS.py
snudda/plotting/Blender/visualisation/makeNeuronCube.py
snudda/plotting/Blender/visualisation/makeNeuronCubeSubset.py
snudda/plotting/Blender/visualisation/visualiseCubeOfNeuronsWhiteBackground.py
snudda/plotting/Blender/visualisation/visualiseStriatumNeurons.py
snudda/plotting/Blender/visualisation/visualiseStriatumNeuronsWithSynapses.py
snudda/plotting/Blender/visualisation/visualise_network.py
snudda/plotting/Blender/visualisation/visualise_network_old.py
snudda/plotting/Blender/visualisation/visualise_touch_detection.py
snudda/prune/__init__.py
snudda/simulate/__init__.py
snudda/simulate/model_current_injections.py
snudda/simulate/network_pair_pulse_simulation.py
snudda/simulate/nrn_simulator_parallel.py
snudda/simulate/pair_recording.py
snudda/simulate/save_network_recording.py
snudda/simulate/simulate.py
snudda/utils/__init__.py
snudda/utils/ablate_network.py
snudda/utils/benchmark_logging.py
snudda/utils/cleanup.py
snudda/utils/clone_neurons.py
snudda/utils/conv_hurt.py
snudda/utils/create_parameter_morphology_input_map.py
snudda/utils/cut.py
snudda/utils/export_connection_matrix.py
snudda/utils/export_eroded_connection_matrix.py
snudda/utils/export_sonata.py
snudda/utils/fake_load.py
snudda/utils/input_helper.py
snudda/utils/load.py
snudda/utils/load_network_simulation.py
snudda/utils/memory.py
snudda/utils/numpy_encoder.py
snudda/utils/pip_upgrade.py
snudda/utils/reposition_neurons.py
snudda/utils/snudda_path.py
snudda/utils/swap_to_degenerated_morphologies.py
snudda/utils/swap_to_degenerated_morphologies_extended.py