raw data, parallel to tilt axis (min-max) 1) Manually crop xy to 500x500 using ImageJ 2) Select substack: slices 1-150 3) Save 16bit tiff to 8-bit tiff using ImageJ min-max scaling 0-255 4) Use ImageJ file-> save as-> image sequence-> format: PNG name: img start at: 0 digits: 4 5) Run ffmeg command to convert image series to mp4: ffmpeg -y -r 50 -f image2 -i img%04d.png -movflags faststart -pix_fmt yuv420p -vcodec libx264 -vf scale=trunc(iw/2)*2:trunc(ih/2)*2 -preset veryslow -crf 18 figure.mp4 max z, parallel to tilt axis (min-max) 1) Manually crop xy to 500x500 using ImageJ 2) Use Image-> Stacks-> Z Project...-> Max Intensity (option) 3) Save 16bit tiff to 8-bit tiff using ImageJ min-max scaling 0-255 4) Use File-> Save As-> PNG raw data, perpendicular to tilt axis (min-max) 1) Manually crop xy to 500x500 using ImageJ 2) Select substack: slices 10-160 3) Save 16bit tiff to 8-bit tiff using ImageJ min-max scaling 0-255 4) Use ImageJ file-> save as-> image sequence-> format: PNG name: img start at: 0 digits: 4 5) Run ffmeg command to convert image series to mp4: ffmpeg -y -r 50 -f image2 -i img%04d.png -movflags faststart -pix_fmt yuv420p -vcodec libx264 -vf scale=trunc(iw/2)*2:trunc(ih/2)*2 -preset veryslow -crf 18 figure.mp4 max z, perpendicular to tilt axis (min-max) 1) Manually crop xy to 500x500 using ImageJ 2) Use Image-> Stacks-> Z Project...-> Max Intensity (option) 3) Save 16bit tiff to 8-bit tiff using ImageJ min-max scaling 0-255 4) Use File-> Save As-> PNG