Comprehensive defect detection in mouse embryos and in the heart by combining automated phenotyping with novel population averages and atlases.

This data set is associated with the following publication: Comprehensive defect detection in mouse embryos and in the heart by combining automated phenotyping with novel population averages and atlases. DOI: Contents E12.5_Population_Average_16bit_5um.nrrd 16-bit E12.5 population average with a voxel size of 5 µm in NRRD format E12.5_Atlas_5um.nrrd E12.5 atlas with a voxel size of 5 µm in 8-bit NRRD format E12.5_labels_5um.csv Meta-data file for 5 µm E12.5 atlas E12.5_stats_mask_5um.nrrd E12.5 tight mask with a voxel size of 5 µm in 8-bit NRRD format E12.5_fixed_mask_5um.nrrd E12.5 rough mask with a voxel size of 5 µm in 8-bit NRRD format Population average, atlas, atlas meta-data, and mask files are also provided at 7µm resolution for E12.5 and for stages E15.5 (14 µm), E17.5 (14 µm and 28 µm resolutions), and E18.5 isolated heart (4.95 µm). The following LAMA configuration files are provided: pop_avg_pairwise.toml LAMA config file for creating a population average using the parallel_average_pairwise.py script generate_data.toml LAMA config file for registering wild type and mutant data to the population average lama_stats.toml LAMA config file for performing statistical analysis using the lama_stats script. permutation_stats.yaml LAMA config file for performing statistical analysis using the lama_permutation_stats script.