Comparison with other tools.

RNA tomography computationally reconstructs 3D spatial gene expression patterns genome-widely from 1D tomo-seq data, generated by RNA sequencing of cryosection samples along three orthogonal axes. We developed tomoseqr, an R package designed for RNA tomography analysis of tomo-seq data, to reconstruct and visualize 3D gene expression patterns through user-friendly graphical interfaces. We show the effectiveness of tomoseqr using simulated and real tomo-seq data, validating its utility for researchers. R package tomoseqr is available on Bioconductor (https://doi.org/doi:10.18129/B9.bioc.tomoseqr) and GitHub (https://github.com/bioinfo-tsukuba/tomoseqr).

RNA断层扫描术（RNA tomography）可通过计算重构手段，从由沿三个正交轴获取的冷冻切片样本RNA测序所生成的一维断层转录组测序（tomo-seq）数据中，实现全基因组范围的三维空间基因表达模式重建。本研究开发了tomoseqr——一款专为tomo-seq数据的RNA断层扫描分析设计的R软件包，可通过友好的图形用户界面完成三维空间基因表达模式的重构与可视化。本研究通过模拟数据与真实tomo-seq数据验证了tomoseqr的有效性，证实其对科研人员具备实用价值。R软件包tomoseqr可在Bioconductor（https://doi.org/doi:10.18129/B9.bioc.tomoseqr）与GitHub（https://github.com/bioinfo-tsukuba/tomoseqr）获取。