CreatedmatchObject

Create a dmatch class object. It is common to correct batch effects for more than two samples. We can run fastSVD with all those samples (as a list) at once. From this step on, we correct batch effects for pairwise samples at a time. We recommend to use the same dataset (sample) which has the most cells/the best quality as the reference sample, and use it to align the rest samples one at a time. The reference sample will be the latter in the pairwiseSamples.list.

CreatedmatchObject(
  pairwiseSamples.list,
  batch.id,
  project = "dmatchProject",
  PCA = PCA
)

Arguments

pairwiseSamples.list	Same as the input pairwiseSamples.list, or subset of the pairwiseSamples.list, for fastSVD. A list of pairwise samples for batch effects correction, each of which is a raw read count dataset. Alternatively, those samples can be the preprocessed and Lognormalized ones; then need to specify no preprocessing and no LogNormalize in the next step projection_to_reference_panel.
batch.id	Batch.ids which are used to denote those two samples in the previous fastSVD step.
project	Project name (string).
PCA	The output from fastSVD, i.e., the list returned by fastSVD function.

Value

Initializes the dmatch object. Return a dmatch class object which have slots storing pairwiseSamples.list, batch.id, PCA, and etc.