qsirecon.cli.recon_plot module

qsirecon.cli.recon_plot.get_camera_for_roi(roi_data, roi_id, view_axis)

qsirecon.cli.recon_plot.odf_roi_plot(odf_4d, halfsphere, background_data, out_file, roi_file, prefix='odf', tile_size=1200, subtract_iso=False, mask=None)

qsirecon.cli.recon_plot.peak_slice_series(odf_4d, sphere, background_data, out_file, mask_image=None, prefix='odf', tile_size=1200, n_cuts=3, padding=4, normalize_peaks=True)

qsirecon.cli.recon_plot.peaks_from_odfs(odf4d, sphere, relative_peak_threshold, min_separation_angle, mask=None, gfa_thr=0, normalize_peaks=False, npeaks=5)

qsirecon.cli.recon_plot.plot_an_odf_slice(odf_4d, full_sphere, background_data, tile_size, filename, centroid, axis, camera_distance, subtract_iso, mask_image)

qsirecon.cli.recon_plot.plot_peak_slice(odf_4d, sphere, background_data, out_file, axis, slicenum, mask_data, tile_size=1200, normalize_peaks=True)

qsirecon.cli.recon_plot.recon_plot()

Convert fib to mif.

qsirecon.cli.recon_plot.sink_mask_file(in_file, orig_file, out_dir)