diff --git a/Tutorial_HTM_2016.Rmd b/Tutorial_HTM_2016.Rmd index 13b65e6be51b3da430e3aa0d9fa386e5b1494a4d..8d48be505abc2bfb526de96390abca35b2eee6d8 100755 --- a/Tutorial_HTM_2016.Rmd +++ b/Tutorial_HTM_2016.Rmd @@ -90,10 +90,11 @@ by the machine learning algorithm, so we only extract this part of the file. ```{r readCellH5, dependson="plate_map", eval=FALSE} -path <- "/g/huber/course/htm_course_2016/embo_course_2014/Analysis_new/hdf5/_all_positions.ch5" +#path <- "/g/huber/course/htm_course_2016/embo_course_2014/Analysis_new/hdf5/_all_positions.ch5" +path <- "Z:/embo2016/htm2016/P12_Visual_Exploration/hdf5/_all_positions.ch5" c5f <- CellH5(path) c5_pos <- C5Positions(c5f, C5Plates(c5f)) -predictions <- C5Predictions(c5f, c5_pos[[1]], mask = "primary__primary3", as = "name") +predictions <- C5Predictions(c5f, c5_pos[[1]], mask = "primary__primary", as = "name") ```