Dataset Open Access

Example data for using napari-pyclesperanto-assistant

Robert Haase

CalibZAPWfixed_000154_max.tif

* Maximum projection of a part of a Drosophila melanogaster embryo showing cell divisions, marked with histone-GFP. Imaged using lightsheet microscopy in Gene Myers lab, MPI-CBG / CSBD Dresden

CLIJ_benchmarking_000350.raw.tif

* 3D Volume of a Drosophila melanogaster during gastrulation marked histone-GFP. Imaged using lightsheet microscopy in Gene Myers lab, MPI-CBG / CSBD Dresden. This dataset was earlier published https://bds.mpi-cbg.de/CLIJ_benchmarking_data

EM_C_6_c0.tif2

* Arabidopsis ovule primordium

* This file has been resaved to TIF

* It originates from https://datadryad.org/stash/dataset/doi:10.5061/dryad.02v6wwq2c It was originally available under CC0 Public Domain by Baroux, Célia, University of Zurich, Mendocilla-Sato, Ethel, University of Zurich, Autran, Daphné, IRD Montpellier

Haase_MRT_tfl3d1.tif

* This MRI dataset of the author was acquired at University Hospital Carl Gustav Carus of the University of Technology, TU Dresden as part of academic training of students in the Department of Radiology

tissue.tif, tissue_measurements.tif

* Simulated tissue + measurement. Code provided for reporducibility:

import pyclesperanto_prototype as cle
import numpy as np
import matplotlib
from numpy.random import random

cle.select_device("RTX")

# Generate artificial cells as test data
tissue = cle.artificial_tissue_2d()

# fill it with random measurements
values = random([int(cle.maximum_of_all_pixels(tissue))])
for i, y in enumerate(values):
    if (i != 95):
        values[i] = values[i] * 10 + 45
    else:
        values[i] = values[i] * 10 + 90

measurements = cle.push(np.asarray([values]))

# visualize measurements in space
tissue_measurements = cle.replace_intensities(tissue, measurements)

Files (263.1 MB)
Name Size
CalibZAPWfixed_000154_max.tif
md5:16f8b7efc838ae90e1aeff2806b17bca
9.2 MB Download
CLIJ_benchmarking_000350.raw.tif
md5:dd922189126289b3a374e88292f1f875
126.9 MB Download
EM_C_6_c0.tif
md5:6b346069c6620fd72ad90390e082a437
28.2 MB Download
Haase_MRT_tfl3d1.tif
md5:0253b9be403dd05cd38bea7cbcff00a5
98.3 MB Download
tissue.tif
md5:87e28e362a132b598d6376d96f67d8bb
257.0 kB Download
tissue_measurements.tif
md5:d22e3c45e0a7654194c7119d70fe22a7
257.0 kB Download
168
129
views
downloads
All versions This version
Views 168168
Downloads 129129
Data volume 11.3 GB11.3 GB
Unique views 141141
Unique downloads 7979

Share

Cite as