diff --git a/.gitignore b/.gitignore index f16eb91..fb37129 100644 --- a/.gitignore +++ b/.gitignore @@ -1,3 +1,5 @@ arm64 __pycache__ *.log +*.dat +x86_64/ diff --git a/NEURON/mb/mod/Steady_state(s)_of_activation_variables_in_ka_at_6.3_degC.png b/NEURON/mb/mod/Steady_state(s)_of_activation_variables_in_ka_at_6.3_degC.png new file mode 100644 index 0000000..7347ec5 Binary files /dev/null and b/NEURON/mb/mod/Steady_state(s)_of_activation_variables_in_ka_at_6.3_degC.png differ diff --git a/NEURON/mb/mod/Steady_state(s)_of_activation_variables_in_kv_at_6.3_degC.png b/NEURON/mb/mod/Steady_state(s)_of_activation_variables_in_kv_at_6.3_degC.png new file mode 100644 index 0000000..2cfbc89 Binary files /dev/null and b/NEURON/mb/mod/Steady_state(s)_of_activation_variables_in_kv_at_6.3_degC.png differ diff --git a/NEURON/mb/mod/Steady_state(s)_of_activation_variables_in_naf_at_6.3_degC.png b/NEURON/mb/mod/Steady_state(s)_of_activation_variables_in_naf_at_6.3_degC.png new file mode 100644 index 0000000..0e364fd Binary files /dev/null and b/NEURON/mb/mod/Steady_state(s)_of_activation_variables_in_naf_at_6.3_degC.png differ diff --git a/NEURON/mb/mod/Time_course(s)_of_activation_variables_in_ka_at_6.3_degC.png b/NEURON/mb/mod/Time_course(s)_of_activation_variables_in_ka_at_6.3_degC.png new file mode 100644 index 0000000..92914b0 Binary files /dev/null and b/NEURON/mb/mod/Time_course(s)_of_activation_variables_in_ka_at_6.3_degC.png differ diff --git a/NEURON/mb/mod/Time_course(s)_of_activation_variables_in_kv_at_6.3_degC.png b/NEURON/mb/mod/Time_course(s)_of_activation_variables_in_kv_at_6.3_degC.png new file mode 100644 index 0000000..0223f24 Binary files /dev/null and b/NEURON/mb/mod/Time_course(s)_of_activation_variables_in_kv_at_6.3_degC.png differ diff --git a/NEURON/mb/mod/Time_course(s)_of_activation_variables_in_naf_at_6.3_degC.png b/NEURON/mb/mod/Time_course(s)_of_activation_variables_in_naf_at_6.3_degC.png new file mode 100644 index 0000000..130e615 Binary files /dev/null and b/NEURON/mb/mod/Time_course(s)_of_activation_variables_in_naf_at_6.3_degC.png differ diff --git a/NeuroML2/channels/RaySigmoid.nml b/NeuroML2/channels/RaySigmoid.nml new file mode 100644 index 0000000..79e03d3 --- /dev/null +++ b/NeuroML2/channels/RaySigmoid.nml @@ -0,0 +1,42 @@ + + + + NeuroML file containing variations of steady state and tau expressions for ion channels used in Ray et al 2020. These are required because in the mod files, the tables stop at 40, and so we need to tweak our implementations. + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff --git a/NeuroML2/channels/Steady_state(s)_of_activation_variables_of_Nas_from_nas.channel.nml_at_6.3_degC.png b/NeuroML2/channels/Steady_state(s)_of_activation_variables_of_Nas_from_nas.channel.nml_at_6.3_degC.png new file mode 100644 index 0000000..c505b9c Binary files /dev/null and b/NeuroML2/channels/Steady_state(s)_of_activation_variables_of_Nas_from_nas.channel.nml_at_6.3_degC.png differ diff --git a/NeuroML2/channels/Steady_state(s)_of_activation_variables_of_ka_from_ka.channel.nml_at_6.3_degC.png b/NeuroML2/channels/Steady_state(s)_of_activation_variables_of_ka_from_ka.channel.nml_at_6.3_degC.png new file mode 100644 index 0000000..83cd115 Binary files /dev/null and b/NeuroML2/channels/Steady_state(s)_of_activation_variables_of_ka_from_ka.channel.nml_at_6.3_degC.png differ diff --git a/NeuroML2/channels/Steady_state(s)_of_activation_variables_of_kv_from_kv.channel.nml_at_6.3_degC.png b/NeuroML2/channels/Steady_state(s)_of_activation_variables_of_kv_from_kv.channel.nml_at_6.3_degC.png new file mode 100644 index 0000000..bb1294a Binary files /dev/null and b/NeuroML2/channels/Steady_state(s)_of_activation_variables_of_kv_from_kv.channel.nml_at_6.3_degC.png differ diff --git a/NeuroML2/channels/Time_Course(s)_of_activation_variables_of_Nas_from_nas.channel.nml_at_6.3_degC.png b/NeuroML2/channels/Time_Course(s)_of_activation_variables_of_Nas_from_nas.channel.nml_at_6.3_degC.png new file mode 100644 index 0000000..b48932e Binary files /dev/null and b/NeuroML2/channels/Time_Course(s)_of_activation_variables_of_Nas_from_nas.channel.nml_at_6.3_degC.png differ diff --git a/NeuroML2/channels/Time_Course(s)_of_activation_variables_of_ka_from_ka.channel.nml_at_6.3_degC.png b/NeuroML2/channels/Time_Course(s)_of_activation_variables_of_ka_from_ka.channel.nml_at_6.3_degC.png new file mode 100644 index 0000000..9155c66 Binary files /dev/null and b/NeuroML2/channels/Time_Course(s)_of_activation_variables_of_ka_from_ka.channel.nml_at_6.3_degC.png differ diff --git a/NeuroML2/channels/Time_Course(s)_of_activation_variables_of_kv_from_kv.channel.nml_at_6.3_degC.png b/NeuroML2/channels/Time_Course(s)_of_activation_variables_of_kv_from_kv.channel.nml_at_6.3_degC.png new file mode 100644 index 0000000..4237759 Binary files /dev/null and b/NeuroML2/channels/Time_Course(s)_of_activation_variables_of_kv_from_kv.channel.nml_at_6.3_degC.png differ diff --git a/NeuroML2/channels/ka.channel.nml b/NeuroML2/channels/ka.channel.nml new file mode 100644 index 0000000..00bc71e --- /dev/null +++ b/NeuroML2/channels/ka.channel.nml @@ -0,0 +1,65 @@ + + + + NeuroML file containing a single ion channel + + + + + + Implementation of A type K+ channel ( KA ) from Wustenberg DG, Boytcheva M, Grunewald B, Byrne JH, Menzel R, Baxter DA. + This is transient A type K+ channel in Apis mellifera Kenyon cells (cultured). + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff --git a/NeuroML2/channels/kv.channel.nml b/NeuroML2/channels/kv.channel.nml new file mode 100644 index 0000000..9c9ec36 --- /dev/null +++ b/NeuroML2/channels/kv.channel.nml @@ -0,0 +1,21 @@ + + + + NeuroML file containing a single ion channel + + + + + + Implementation of A type K+ channel ( KV ) from Wustenberg DG, Boytcheva M, Grunewald B, Byrne JH, Menzel R, Baxter DA. + This is a delayed rectifier type K+ channel in Apis mellifera Kenyon cells (cultured). + + + + + + + + + + diff --git a/NeuroML2/channels/naf.channel.nml b/NeuroML2/channels/naf.channel.nml new file mode 100644 index 0000000..15661ba --- /dev/null +++ b/NeuroML2/channels/naf.channel.nml @@ -0,0 +1,26 @@ + + + + NeuroML file containing a single ion channel + + + + + + Implementation of fast Na+ channel ( NAF ) from Wustenberg DG, Boytcheva M, Grunewald B, Byrne JH, Menzel R, Baxter DA + + This is fast Na+ channel in Apis mellifera Kenyon cells :(cultured). + + + + + + + + + + + + + + diff --git a/NeuroML2/channels/nas.channel.nml b/NeuroML2/channels/nas.channel.nml index 533a59d..eaa4f93 100644 --- a/NeuroML2/channels/nas.channel.nml +++ b/NeuroML2/channels/nas.channel.nml @@ -2,8 +2,9 @@ NeuroML file containing a single ion channel + - + Implementation of slow Na+ channel ( NAS ) from Wustenberg DG, Boytcheva M, Grunewald B, Byrne JH, Menzel R, Baxter DA @@ -11,127 +12,14 @@ This is slow Na+ channel in Apis mellifera Kenyon cells :(cultured). - - - + + + - - - + + + - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -