SlideCNA example data

This repository contains the data necessary to follow the slideCNA vignettes showcasing possible avenues of copy number aberration (CNA) calling in slide-seq data. Raw data to prepare input to slideCNA starting: HTAPP-895-SMP-7359_scRNAseq_processed.h5ad: annotated scRNAseq reference data for annotation transfer (input for slide-seq cell type annotation with RCTD and beadsplitting) HTAPP-895-SMP-7359_slide_seq_processed.h5ad: cleaned slide-seq unannotated raw data (input for slide-seq cell type annotation with RCTD and beadsplitting) Prepared data for direct input to slideCNA: HTAPP-895-SMP-7359_slide-seq_processed_bs.h5ad: slide-seq beadsplitting results (as direct input for slideCNA) HTAPP-895-SMP-7359_slide-seq_processed_RCTD.h5ad: slide-seq data with RCTD cell type annotation (as direct input for slideCNA) gene_pos.Robj: genomic gene positions along the chromosomes (input for slideCNA)本仓库包含复现slideCNA配套使用示例文档所需的全部数据，该示例文档展示了在slide-seq测序数据中开展拷贝数变异（copy number aberration, CNA）检测的可行路径。 用于预处理以生成slideCNA输入文件的原始数据如下： HTAPP-895-SMP-7359_scRNAseq_processed.h5ad：用于注释迁移的已注释单细胞RNA测序（scRNAseq）参考数据集，可作为通过RCTD和beadsplitting开展slide-seq细胞类型注释的输入文件 HTAPP-895-SMP-7359_slide_seq_processed.h5ad：经过清洗的未注释slide-seq原始数据集，可作为通过RCTD和beadsplitting开展slide-seq细胞类型注释的输入文件 可直接作为slideCNA输入文件的预处理完成数据如下： HTAPP-895-SMP-7359_slide-seq_processed_bs.h5ad：slide-seq的beadsplitting分析结果，可直接作为slideCNA的输入文件 HTAPP-895-SMP-7359_slide-seq_processed_RCTD.h5ad：带有RCTD细胞类型注释的slide-seq数据集，可直接作为slideCNA的输入文件 gene_pos.Robj：沿染色体分布的基因组基因位置信息，可作为slideCNA的输入文件