Module normalization 

Count normalization for RNA-seq and related assays.

All functions operate on row-major &[f64] slices with dimensions (n_genes, n_samples), matching cyanea_omics::ExpressionMatrix layout.

• cpm — Counts per million
• tpm — Transcripts per million (requires gene lengths)
• fpkm — Fragments per kilobase of transcript per million mapped reads
• size_factors — DESeq2-style median-of-ratios normalization factors
• normalize_by_size_factors — Divide counts by per-sample size factors

Functions

cpm

Counts per million: CPM_ij = count_ij / library_size_j * 1e6.

fpkm

Fragments per kilobase of transcript per million mapped reads.

normalize_by_size_factors

Divide each count by the corresponding sample’s size factor.

size_factors

DESeq2-style size factors via the median-of-ratios method (Anders & Huber 2010).

tpm

Transcripts per million.