Normalization (Next-Gen)

Click on a button corresponding to an expression normalization (next-gen) process. Refer to the table below for guidance.

Process	Choose this process for...
KDMM Normalization	Normalizing RNA-seq count data using the Kernel Density Mean of M component (KDMM) scaling method Caution: This process can be computationally intensive for large data sets.
RPM Scaling	Normalizing RNA-seq count data based on the reads per million (RPM) method (raw read count / total mapped reads * 1,000,000)
TMM Normalization	Normalizing RNA-seq count data using the Trimmed Mean of M component (TMM) scaling method Caution: This process can be computationally intensive for large data sets.
TPM Normalization	Normalizes Count data by adjusting reads per kilobase (RPK) using a per million scaling factor for each sample to generate the TPM.
Upper Quartile Scaling	Normalizing RNA-seq count data by applying a scaling factor based on the upper quartile to scale each column

See Expression for other subcategories.