![]() ![]() (The pixel size will be set automatically from the information in the input STAR file.) Use reference-based template-matching? Select/job005/micrographs_split1.star Pixel size in micrographs (A) Now, proceed to the Auto-picking job, and on the I/O tab set: Input micrographs for autopick: Note that if one would have preferred a more user-interactive way of selecting micrographs for training, one could have also selected certain micrographs in the GUI of the previous Manual picking job, to then save a file called micrographs_selected.star inside that output directory. We will only use the first one Select/job005/micrographs_split1.star. Then press Run!, which will create star files with subsets of 10 micrographs in the output directory. Yes Randomise order before making subsets? Then, on the Subsets tab, set: OR split into subsets? ![]() In order to select a subset of the micrographs, go to the Subset selection job, and on the I/O tab leave everything empty, except: OR select from micrographs.star: One typically trains the topaz neural network on a relatively small subset of the micrographs. In that case, one could skip the jobs of LoG-picking, 2D classification, automated 2D class selection and re-training of the topaz network below, and proceed straight to the last Auto-picking job on this page. The selected particles will then be used to train the neural network in topaz to specifically pick particles for this data set.Īlternatively, one could run topaz picking with their default neural network straight away. In addition, we will use a new automated 2D class average selection procedure to select particles that contribute to good classes without any user interaction. Since relion-4.0, there is also an integrated topaz wrapper in the Auto-picking job, which will be used instead. The tutorial up until relion-3.1 would suggest to use the resulting class averages as templates for a second, reference-based Auto-picking job. These particles will then be used in a 2D classification job to generate 2D class averages. ![]() We will now use a template-free auto-picking procedure based on a Laplacian-of-Gaussian (LoG) filter to select an initial set of particles. Particle picking ¶ Select a subset of the micrographs ¶ ![]()
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