You may download the latest release with:
shell
git clone -b v0.7.2 https://github.com/angelolab/ark-analysis.git
What's new?
Cell table and cell distances updates
Updates to marker_quantification.generate_cell_table() which allows for segmentation masks to have various filenames. Rather than requiring `fov1_whole_cell.tiff`, files can be either `fov1.tiff` or `fov1-any_suffix.tiff`. For spatial analysis, distance matrices are now generated using simply the cell centroids from the cell table, rather than requiring the segmentation masks and running regionprops to locate centroids.
Packaging updates
Spatial Enrichment has been removed along with it's `Cython` components. This allows `Ark` to be a pure python package reducing build times, and not requiring operating system specific compiled versions.
In addition as part of removing the custom Docker builds, we have removed Docker related information from the README.
🚀 Features
- Adjust mask suffix input to generate\_cell\_table camisowers (1164)
- Distance table generation without segmentation masks camisowers (1159)
🧰 Maintenance
- Removed Spatial Enrichment + Cython srivarra (1163)
- Remove anything Docker related from the README alex-l-kong (1158)
📚️ Documentation
- Update release version in readme camisowers (1166)
alex-l-kong, camisowers and srivarra