ctrueden

# read in and display ImagePlus object(s)
from loci.plugins import BF
file = "/Users/curtis/data/tubhiswt4D.ome.tif"
imps = BF.openImagePlus(file)
for imp in imps:
    imp.show()

# read in and display ImagePlus(es) with arguments
from loci.common import Region
from loci.plugins.in import ImporterOptions

dvlden

This is my personal list of functions that I wrote for converting mov files to mp4!

Command Flags

Flag	Options	Description
-codec:a	libfaac, libfdk_aac, libvorbis	Audio Codec
-quality	best, good, realtime	Video Quality
-b:a	128k, 192k, 256k, 320k	Audio Bitrate
-codec:v	mpeg4, libx264, libvpx-vp9	Video Codec

imagejan

#@ ImagePlus imp
#@ File (style = "directory", label = "Output folder") outputFolder
#@ String (label = "Output file name") filename
#@ double (label = "Spot radius", stepSize=0.1) radius
#@ double (label = "Quality threshold") threshold
#@ int (label = "Max frame gap") frameGap
#@ double (label = "Linking max distance") linkingMax
#@ double (label = "Gap-closing max distance") closingMax

import fiji.plugin.trackmate.Model

aaristov

//ImageJ macro making a movie (stack) of zooming on selected rectangle (ROI)
//v2 Eugene Katrukha katpyxa at gmail.com
//v2a Andrey Aristov: aaristov at pasteur.fr
requires("1.48h");

//check if there is rectangular selection
if(selectionType() ==0)
{
	sTitle=getTitle();
	sMovieTitle=sTitle+"_zoom_movie";

ctrueden

#@ ImageJ ij
#@ File file

import io.scif.config.SCIFIOConfig;
import io.scif.config.SCIFIOConfig.ImgMode;
import io.scif.ome.OMEMetadata

// Open and display a file as a cell image.
config = new SCIFIOConfig().imgOpenerSetImgModes(ImgMode.CELL)
dataset = ij.scifio().datasetIO().open(file.getAbsolutePath(), config)