Importing Data Using BactMAP - veeninglab/BactMAP GitHub Wiki

program	detects	function
Oufti	cell meshes spots objects genealogy	extr_Oufti()
SuperSegger	cell meshes spots genealogy	extr_SuperSeggerClist and extr_SuperSeggerCells
ObjectJ	cell bounding box	extr_ObjectJ()
Morphometrics	cell meshes objects	extr_Morphometrics()
MicrobeJ	cell meshes spots objects	extr_MicrobeJ()
Custom import from other program	cell meshes spots objects	extr_Meshes(), extr_Spots()

Now, only the peak fitter and tracker output data from ISBatch are standardly importable in BactMAP. Other spot tracking output can be imported from .CSV or .TXT using extr_Spots.

program	function:
ISBatch	extr_ISBatch()
custom import from other program	extr_Spots()

Uploading the raw tiff stacks can be useful for making kymographs or projections without doing spot or object detection first, or to check your segmentation/detection visually.

data type	function:
greyscale, single channel TIFF/TIF image or image stack	extr_OriginalStack