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NormalizationWithThreeDRNAseq.md 531 B

Normalization with ThreeDRNAseq R package

We kept transcripts with a minimum of 1 CPM (counts per million) in at least three samples. Normalization of TPM (transcript per million) was conducted using the ‘ThreeDRNAseq’ R package (v2.0.1) (Guo et al., 2021). For TPM values, see Supplementary Dataset 2 and 3. As the samples were collected at different DAEs and RNA extraction was conducted in several batches, we removed the batch effect in the gene count by using the ThreeDRNAseq’ R package (v2.0.1) (Guo et al., 2021).