  In our Brief Communication (DOI: 10.1038/s41592-018-0033-z), we presented the
method SAVER for recovering true gene expression levels in noisy single cell
RNA sequencing data. We evaluated the performance of SAVER, along with
comparable methods MAGIC and scImpute, in an RNA FISH validation experiment and
a data downsampling experiment. In a Comment [arXiv:1908.07084v1], Li & Li were
concerned with the use of the downsampled datasets, specifically focusing on
clustering results obtained from the Zeisel et al. data. Here, we will address
these comments and, furthermore, amend the data downsampling experiment to
demonstrate that the findings from the data downsampling experiment in our
Brief Communication are valid.
