@article {65178,
	title = {ilastik: interactive machine learning for (bio)image analysis.},
	journal = {Nature Methods},
	volume = {16},
	year = {2019},
	month = {2019 Sep 30},
	pages = {1226-32},
	abstract = {<p>We present ilastik, an easy-to-use interactive tool that brings machine-learning-based (bio)image analysis to end users without substantial computational expertise. It contains pre-defined workflows for image segmentation, object classification, counting and tracking. Users adapt the workflows to the problem at hand by interactively providing sparse training annotations for a nonlinear classifier. ilastik can process data in up to five dimensions (3D, time and number of channels). Its computational back end runs operations on-demand wherever possible, allowing for interactive prediction on data larger than RAM. Once the classifiers are trained, ilastik workflows can be applied to new data from the command line without further user interaction. We describe all ilastik workflows in detail, including three case studies and a discussion on the expected performance.</p>
},
	issn = {1548-7105},
	doi = {10.1038/s41592-019-0582-9},
	author = {Berg, Stuart and Kutra, Dominik and Kroeger, Thorben and Straehle, Christoph N and Kausler, Bernhard X and Haubold, Carsten and Schiegg, Martin and Ales, Janez and Beier, Thorsten and Rudy, Markus and Eren, Kemal and Cervantes, Jaime I and Xu, Buote and Beuttenmueller, Fynn and Wolny, Adrian and Zhang, Chong and Koethe, Ullrich and Hamprecht, Fred A and Kreshuk, Anna}
}
@article {48254,
	title = {Multicut brings automated neurite segmentation closer to human performance.},
	journal = {Nature Methods},
	volume = {14},
	year = {2017},
	month = {2017 Jan 31},
	pages = {101-102},
	issn = {1548-7105},
	doi = {10.1038/nmeth.4151},
	author = {Beier, Thorsten and Pape, Constantin and Rahaman, Nasim and Prange, Timo and Berg, Stuart and Bock, Davi D and Cardona, Albert and Knott, Graham W and Plaza, Stephen M and Scheffer, Louis K and Koethe, Ullrich and Kreshuk, Anna and Hamprecht, Fred A}
}
