You may download the latest release with:
git clone -b v0.7.2 https://github.com/angelolab/ark-analysis.gitWhat'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)
