Edge detection is now used to improve object position detection.

martin3141 · Jan 10, 2019 · 22cddc5 · 22cddc5
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,8 +1,8 @@
 Package: fmriqa
 Type: Package
 Title: Functional MRI Quality Assurance Routines
-Version: 0.3.0
-Date: 2018-02-19
+Version: 0.4.0
+Date: 2019-01-10
 Authors@R: person("Martin", "Wilson", email = "martin@pipegrep.co.uk",
                    role = c("cre","aut"))
 Description: Methods for performing fMRI quality assurance (QA) measurements of
@@ -11,7 +11,7 @@ Description: Methods for performing fMRI quality assurance (QA) measurements of
 BugReports: https://github.com/martin3141/fmriqa/issues
 License: GPL-3
 LazyData: true
-RoxygenNote: 6.0.1
+RoxygenNote: 6.1.1
 Imports:
   viridisLite,
   RNifti,

diff --git a/NEWS.md b/NEWS.md
@@ -1,3 +1,6 @@
+# fmriqa 0.4.0
+* Edge detection is now used to improve object position detection.
+
 # fmriqa 0.3.0
 * Improved method for calculating the object center of gravity for automated
 ROI placement.

diff --git a/R/run_fmriqa.R b/R/run_fmriqa.R
@@ -178,9 +178,10 @@ run_fmriqa <- function(data_file = NULL, roi_width = 21, slice_num = NULL,
   # set na values to zero
   SFNR_full[is.na(SFNR_full)] <- 0
 
-  # threshold the image to reduce inhomogenity for cog calc
+  # threshold the image using edge detection to reduce inhomogenity for cog calc
   av_image_cimg <- imager::as.cimg(av_image)
-  obj_thr <- imager::threshold(av_image_cimg)
+  obj_thr <- imager::px.flood(imager::as.cimg(imager::cannyEdges(av_image_cimg)), x_dim / 2, y_dim / 2)
+
   cog_image <- obj_thr[,]
 
   # mean object intensity

diff --git a/man/run_fmriqa.Rd b/man/run_fmriqa.Rd
diff --git a/tests/testthat/ref_results.rds b/tests/testthat/ref_results.rds