Tiago Ferreira tferr

tferr / Convert_Traces_to_SWC.py

Created October 27, 2016 17:26 — forked from mhl/Convert_Traces_to_SWC.py

Batch convert Simple Neurite Tracer's .traces files to SWC format

	import os
	import re
	from tracing import PathAndFillManager

	# An example script showing how to convert all the .traces
	# files in a directory to SWC files. (The .traces format
	# is the native file format of Simple Neurite Tracer.)

	def run():
	d = IJ.getDirectory("Choose your directory of .traces files...")

tferr / multichannel_profile_plot.ijm

Last active August 29, 2015 14:09 — forked from mutterer/multichannel_profile_plot.ijm

	// yet another multichannel profile plotter
	// with smart(?) lookuptables

	Stack.getDimensions(w, h, c, z, t);
	p = getProfile();
	getStatistics(null, null, min, max);
	Plot.create("Multi-Channel Profile Plot", "Distance (pixels)", "Value");
	Plot.setLimits(0,p.length,min,max);
	for (i=1;i<=c;i++) {
	Stack.setChannel(i);