# Tomo-seq data analysis

## Documentation for package ‘tomoda’ version 1.23.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

corHeatmap | Correlation heatmap of sections
createTomo | Create an object representing tomo-seq data
createTomo-method | Create an object representing tomo-seq data
embedPlot | Embedding plot for sections
expHeatmap | Expression heatmap
findPeak | Find peak in a vector
findPeakGene | Find peak genes
geneCorHeatmap | Correlation heatmap of genes
geneEmbedPlot | Embedding plot for genes
hierarchClust | Hierarchical clustering across sections
kmeansClust | K-Means clustering across sections
linePlot | Line plot for expression traces
normalizeTomo | Normalize data
runPCA | Perform PCA
runTSNE | Perform TSNE
runUMAP | Perform UMAP
scaleTomo | Scale data
tomoMatrix | Create an object from matrix
tomoSummarizedExperiment | Create an object from SummarizedExperiment
zh.data | A raw read count matrix of zebrafish injured heart.