Pattern features of zebrafish upon varying long-range interaction scale in melanophore cell birth

We provide summary pattern features of model simulations of wild-type, shady, and pfeffer zebrafish patterns generated using the agent-based model from "Volkening A and Sandstede B (2018) Iridophores as a source of robustness in zebrafish stripes and variability in Danio patterns. Nat. Commun. 9(3231)." <br>The simulations were run by varying the inner radius parameter corresponding to the long-range interaction scale in melanophore cell birth from 10 to 400 um in increments of 25 um (default parameter value from the model is 210 um). We ran 100 simulations under each parameter regime for wild-type, pfeffer, and shady (the nacre mutation lacks melanophore cells so we don't include it in this dataset). <br>The shady patterns were generated by turning off cell birth for iridiopores, and, the pfeffer patterns were generated by turning off cell birth for xanthophores. All simulations were run in MATLAB. <br>For wild type, the summary pattern features provide statistics about the simulation outputs in terms of topological betti numbers of the stripe patterns, stripe width, straightness of stripes, local cell-cell distances and local cell-cell densities, day in which stripes the second and third interstripes X1V and X1D form, and the melanophore coefficient of variation. For the shady and pfeffer mutations, the summary pattern features provide statistics about the simulation outputs in terms of topological betti numbers of the spot patterns, size of each cluster/spot, alignment of the spots, roundness of the spots (pca ev ratio), local cell-cell distances and local cell-cell densities, and the melanophore coefficient of variation. All of these pattern features were computed automatically using the methods from "McGuirl M, Volkening A, and Sandstede B (2019) Topological data analysis of zebrafish patterns. arXiv. 1910.08433." <br>All data are in the form of .mat files and the pattern features are contained in the pattern_info variable. We also provide .csv files which the data from each parameter regime in a single file.

我们提供了基于《Volkening A和Sandstede B (2018) Iridophores as a source of robustness in zebrafish stripes and variability in Danio patterns. Nat. Commun. 9(3231)》中提出的基于智能体的模型（agent-based model）生成的野生型、遮荫型（shady）和Pfeffer突变型斑马鱼图案的模拟结果汇总特征。
本次模拟通过调整黑素细胞增殖过程中对应长程相互作用尺度的内半径参数，参数取值范围为10至400 μm，步长为25 μm（该模型的默认参数值为210 μm）。针对野生型、Pfeffer突变型和遮荫型斑马鱼，我们在每个参数组合下均运行100次模拟；nacre突变体缺乏黑素细胞，因此未将其纳入本数据集。
遮荫型（shady）斑马鱼图案通过关闭虹彩细胞（iridiophores）的细胞增殖过程生成，而Pfeffer突变型斑马鱼图案则通过关闭黄色素细胞（xanthophores）的细胞增殖过程生成。所有模拟均在MATLAB环境中运行。
针对野生型样本，汇总图案特征包含模拟输出的多项统计指标，具体包括条纹图案的拓扑贝蒂数（topological Betti numbers）、条纹宽度、条纹平直度、局部细胞间距离与局部细胞密度、第二条与第三条间条纹X1V及X1D的形成天数，以及黑素细胞变异系数。
针对遮荫型与Pfeffer突变体，汇总图案特征包含模拟输出的多项统计指标，具体包括斑点图案的拓扑贝蒂数、每个簇/斑点的尺寸、斑点对齐程度、斑点圆度（主成分分析特征值比，pca ev ratio）、局部细胞间距离与局部细胞密度，以及黑素细胞变异系数。
所有上述图案特征均通过《McGuirl M, Volkening A, and Sandstede B (2019) Topological data analysis of zebrafish patterns. arXiv. 1910.08433》一文中提出的方法自动计算得到。
所有数据均以.mat格式文件存储，图案特征存储于pattern_info变量中。我们还提供了.csv格式文件，将每个参数组合下的所有数据整合至单个文件中。