CNI workflow scripts

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