Question: What is the recommended amount of PhiX to spike into 10x libraries?
Answer: Our recommendation is to spike-in PhiX with 10x Genomics libraries during the sequencing run. We recommend 1% PhiX on Illumina instruments.
Additional Notes: For NextSeq with 3' CRISPR Feature Barcoding library run alone, the current recommendation is 20% PhiX. We have not tested running 5' CRISPR screen libraries alone.
For Fixed RNA Profiling, the recommendation for Multiplexed libraries is 5% PhiX, while it is 1% PhiX for Singleplexed libraries.
You can always spike in more, but keep in mind that this will reduce the 10x library output.
Products: Single Cell Gene Expression, Single Cell Immune Profiling, Single Cell ATAC, Fixed RNA Profiling Gene Expression, Single Cell Multiome ATAC+GEX