Jupyter Notebooks used to analyze and generate figures for "Distinct synaptic connectivity and target specificity of predicted Sst-transcriptomic types in electron microscopy"
Notebooks were run on Python 3.10.09 on a Windows OS (except Fig2_vtk_render_allcell_outputs_myelin_streamline_for_review which requires Mac OS)
The mm3 EM dataset is publicly available at: https://www.microns-explorer.org/cortical-mm3. Analysis for this paper was performed on version 661 of the dataset, a snapshot taken on September 19th, 2023 at 4:00am UTC.
The Patch-seq gene expression data “Mouse Patchseq VIS - RNAseq” is publicly available at: https://knowledge.brain-map.org/data/1HEYEW7GMUKWIQW37BO/ Summary and the associated cell metadata is available here: https://portal.brain-map.org/cell-types/classes/multimodal-characterization
We are not currently supporting this code, but simply releasing it to the community AS IS but are not able to provide any guarantees of support. The community is welcome to submit issues, but you should not expect an active response.