Various fixes #4
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Split mandatory ccfv2 fibers and cell containing regions combination from ccfv3 / ccfv2 annotation combination Add normalization and cell overlapping of Nissl and ISH dataset to match Erö's pipeline. Fix glia cell density placement, prevent negative densities. Add purely inhibitory regions for Erö's method to match model from 2019.
…ove precision (not for storage).
mgeplf
commented
Jul 13, 2022
Convert glia subtype densities to float64. Fix masks for cerebellar cortex, molecular and cortex L1 and related test. Add condition for denominator in normalize_intensity. Fix tests related to get_glia_input_data: forced outside intensity to be low so that the intensity of the fake datasets is not null after thresholding. Fix test_compute_inhibitory_neuron_density, it now requires a real RegionMap.
This was referenced Jul 27, 2022
Separated the ccfv2 combination from the ccfv2-ccfv3 annotation combination. Added default config files to run the pipeline in atlas_densities/app/data/.
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@drodarie: I noticed there is now |
Fix filenames in yaml config files.
The file was moved from to the markers folder.
drodarie
approved these changes
Jul 28, 2022
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