This is a collection of workflow scripts related to OpenMIMS. If you find a bug please submit an issue. If you don't have/want a github account, you can submit an issue via gitreports. Note that some scripts are more polished than others.
Look at the readme for each script for info.
- mosaic_nrrd: generate mosaics from separate nrrd files
- micro-manager: small beanshell scripts to capture images and stage positions on out Nikon microscope
- nikon_rotate_label: label images captures with micromanager scripts
- imgs2pdf_latex: make a pdf from images
- grab_nrrd_metadata: create a csv file of nrrd header fields
- Other scripts include: images_db, fiji-scripts, transfer, reformat_depthprofile, jmp_scripts