SRTProject object is a class with a number of slots designed for storing the SRT datasets and the analysis results. Key slots to access are listed below.
a SimpleList object to record the project-related info, such as outputPath, projectName
a SimpleList object to record the project summary data, such as how many spots for each data batches.
a DataFrame object to record the info. about each data batch, such as gender, platform and so on.
a DataFrame object to record the meta data of each spot.
a SimpleList object to record the meta data of genes, such as SVGs data.frame, HVGs data.frame.
a DataFrame object to record the spatial coordinates.
a SimpleList to record the inferred dimension reductions (DRs) by dimension reduction methods.
a SimpleList to record the embeddings based on DRs, such as tSNE, UMAP.
a factor object to record the inferred clusters by clustering methods.
a SimpleList to record the model parameters for specified model.
Returns a UMAP representation.