diff --git a/README.md b/README.md index 131ce909ae7962cf1d9340160f3b03b585753c7f..c7ae4b754a23e7d6c5cfc5a9cca390b4b3165ae0 100644 --- a/README.md +++ b/README.md @@ -29,7 +29,10 @@ Here we define a quantifier object The segmentations should be images which come out of ilastik, segmenting an object of interest The alignment json should be out of DeepSlice, QuickNII, or VisuAlign, it defines the sections position in an atlas The colour says which colour is the object you want to quantify in your segmentation. It is defined in RGB -Finally the atlas name is the relevant atlas from brainglobe_atlasapi you wish to use in Quantification. +Finally the atlas name is the relevant atlas from brainglobe_atlasapi or a custom atlas. + +basic_example_custom_atlas.py + """ pnt = PyNutil( segmentation_folder='../tests/test_data/big_caudoputamen_test/',