fixed NEWS.md so it shows up on website

DESCRIPTION

@@ -2,7 +2,6 @@ Package: SpotSweeper
 Title: Spatially-aware quality control for spatial transcriptomics
 Version: 1.3.1
 Date: 2024-11-08
-
 Authors@R: c(
     person("Michael", "Totty", ,"[email protected]", role = c("aut", "cre"),
            comment = c(ORCID = "0000-0002-9292-8556")),
@@ -52,3 +51,4 @@ Suggests:
 Config/testthat/edition: 3
 VignetteBuilder: knitr
 LazyData: False
+News: NEWS.md

NEWS.md

@@ -1,19 +1,19 @@
 # SpotSweeper Package News
 
-## Version 1.3.1
+# Version 1.3.1
 
-### Major Changes
+## Major Changes
 - **Function Renaming**: The function `plotQC` has been renamed to `plotQCmetrics` to better reflect its purpose. The new function `plotQCmetrics` should be used moving forward. This change improves clarity in the package’s API by specifying that this function is designed for plotting QC metrics.
 
 
-### New Features and Enhancements
+## New Features and Enhancements
 - **`shape` argument**: Added a `shape` argument to `findArtifacts`, allowing users to specify the neighborhood shape as either `"hexagonal"` or `"square"` for local variance calculations. This enhancement provides flexibility for different spatial arrangements in spatial transcriptomics data.
 
 - **Updated `n_order` parameter**: Renamed the `n_rings` parameter to `n_order` in the `findArtifacts` function to better describe its purpose of specifying the N-order neighbors for local mitochondrial variance calculations.
 
 - **Parallelization**: Added a `workers` argument for parallel processing using `BiocParallel` in both `localOutlier` and `localVariance` functions. This allows for faster computation, particularly on larger datasets.
 
-### Deprecations
+## Deprecations
 - **`plotQC` Function Deprecated**: The `plotQC` function is now deprecated. While it remains available for backward compatibility, users are encouraged to transition to `plotQCmetrics`. Calling `plotQC` will display a warning, reminding users of the deprecation.
 
 This change is backward compatible; existing code using `plotQC` will still work but will show a warning. We recommend updating your code to use `plotQCmetrics` to avoid any issues in future versions where `plotQC` may be removed.