Integrating Data From Multiple Samples

Data integration is the process of merging multiple experiments into a single dataset in order to boost statistical power and enable robust biological comparisons. An important aspect of this process is eliminating confounding technical variations.

10x Genomics offers two workflows for data integration:

Cell Ranger aggr

The cellranger aggr pipeline is a data aggregation tool, part of the 10x Genomics suite. Its primary function is to combine the outputs of multiple cellranger multi, count, or vdj runs into a single dataset.

SCTransform/Harmony workflow (Cloud Analysis)

The industry-standard SCTransform/Harmony workflow for single cell data normalization, variance stabilization, and batch correction is now available on the 10x Genomics Cloud Analysis platform.