Comments (4)
The DirectionRule_others and DirectionRule_EE rules are found in the run_bionet.py script. The functions are called right before the simulation starts. They don't change the connections between cells, but adjust the synaptic weight ("syn_weight" property) based how similar the "tuning_angle" property is between any two cells.
The DirectionRule_EE rule for any excitatory-to-exciatory connection, while the DirectionRule_other is for all other type of connection; exc->inh, inh->exc, inh->inh. Also DirectionRule_EE is a bit more complicated and will take into account the distance between pre/post-synaptic cells when updating the synaptic weight. In the Billeh 2020 Neuron paper the supplementary methods section goes into more detail, but if you want I can get you into contact with our scientists who work on the V1 model?
from bmtk.
Dear @kaeldai ,
Thank you for your answer. It was definitely easier than I thought to find this information. My mistake.
Before closing this issue, I have one last inquiry. The connectivity of the network from LGN to V1 nodes is defined by the 'wmax' weight function. If I understand correctly, this means that the synaptic weight of every edge is set at a scalar value defined by the 'syn_weight' property. Am I correct? I am asking because if this is the case, I am confused about the reason why the 'weight_sigma' property is also defined in the edge_params.
Thank you in advance.
Best regards,
Nicolò
from bmtk.
You are correct that wmax function just uses the "syn_weight" value for setting the synaptic weight. So in the current version of lgn_v1_edge_types.csv the "weight_function" and "weight_sigma" are not used. It's been a while, but I sorta remember when the V1 model was being built there were some versions of the LGN connections that used customized directionrules like the recurrent V1 connections - so I think those columns are a left over artifact.
from bmtk.
Dear @kaeldai ,
Thank you again for the exhaustive explanation. I can now close the issue.
Thanks once again.
Best regards,
Nicolò
from bmtk.
Related Issues (20)
- Installing from source via pip
- Problem importing bmtk.analyzer.compartment HOT 2
- tutorial 1 step 2 compiling error
- tutorial 5 os.geteuid nest root access error
- Using bionet iclamp with MPI fails due to accessing cells not on rank
- The cosine bump basis functions used in FilterNet seem to be different from the formula in Pillow et.al. J Neurosci 2005
- Merge tutorials (workshop and regular)
- "TwoSubfieldLinearCell" saves the dominant_filter amplitude for nondominant_filter unit
- FilterNet: Changing the location of nondominant filter also changes the location of dominant filter in class "TwoSubfieldLinearCell" of "cellmodel.py" in bmtk HOT 2
- Synapse location
- The support of GPU HOT 2
- Extracting synapses placement along depth axis HOT 2
- Refer to NEST models and NESTML HOT 6
- Record GLIF model after spike current PointNet HOT 2
- Confusing time stamps in TemporalFilter imshow function
- Assigning Individual cell model configuration file to each node of a population
- PointNet Synapse Dynamics params receptor type referring to proximal dendrite
- Many examples won't work if config file is not specified in Python 3.9+ HOT 2
- Cannot set glif_cond model parameters in PointNet
- Cannot rebuild network for V1 models HOT 1
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from bmtk.