Library Pooling

Single Cell Multiome ATAC libraries may be pooled with other ATAC libraries only when using forward strand Illumina® workflow. Single Cell Multiome Gene Expression libraries maybe pooled for sequencing with other libraries, taking into account the differences in cell number and per-cell read depth requirements between each library. Samples utilizing the same sample index should not be pooled together, or run on the same flow cell lane, as this would not enable correct sample demultiplexing. Refer to the 10x Genomics Support website for more information.

Refer to Batch Effect with Different Chemistry Versions for information regarding batch effects when analyzing libraries generated using different chemistry versions.