NEWS
cellGeometry 0.5.8
03/02/2026
- BUGFIX: Fixed critical bug in
cellMarkers() where min_cells filtering
was non-functional due to incorrect operator precedence.
- Improved numerical stability across all core functions:
- Protected against division by zero in
dotprod(), equalweight(), scaleSphere()
- Added input clamping for
acos() to prevent NaN from floating-point errors
- Added singular matrix detection in
deconv()
- Fixed NA handling in outlier detection during multi-pass deconvolution
- Added robust error handling in
rstudent() and cooks.distance() methods
- Fixed edge case in
balance_cores() when cores = 1.
- Unified code style: consistent spacing around operators throughout codebase.
- Added comprehensive test suite with 69+ tests covering:
- Core mathematical functions
- Scientific accuracy validation
- Edge cases and numerical stability
- Integration tests for full deconvolution workflow
- Updated maintainer and repository information.
cellGeometry 0.5.7 (2025-12-11)
11/12/2025
- Change
log argument in deconvolute() to logged_bulk. NB. this is a
change of logic.
cellGeometry 0.5.6
07/10/2025
- Add
residuals.deconv() to allow recalculation of full residuals matrix.
cellGeometry 0.5.5
10/09/2025
- Fix bug in
mergeMarkers() if cellMarkers object has no cell grouping vector.
cellGeometry 0.5.4 (2025-09-15)
09/09/2025
- Fix CRAN checks
- Switch from using
cat() to message()
cellGeometry 0.5.3
26/08/2025
- Massive speed up (4-5x) in compensation optimisation
cellGeometry 0.5.2
30/07/2025
- Expanded to 3 methods for identifying outlier genes (var.e, Cook's distance,
Studentized residuals)
- Improved (nested) parallelisation of
tune_deconv()
- Rewrite weights code (faster)
cellGeometry 0.5.0
14/07/2025
- Calculation of SE
- Detection and multipass removal of problematic genes with extreme residuals
cellGeometry 0.2.0
24/01/2025
- This is the initial build of cellGeometry