norm: norm(PAC)

In Danis102/seqpac: Seqpac: A Framework for smallRNA analysis in R using Sequence-Based Counts

norm(PAC)

Description

Access the norm list with normalized table in S4 PAC

Usage

norm(object)

## S4 method for signature 'PAC'
norm(object)

## S4 replacement method for signature 'PAC,list'
norm(object) <- value

Arguments

object	A S4 PAC-object containing a norm list ('folder') with normalized data.frames. Can be generated by the PAC_norm function.
value	List of data.frames having the same column names as row names in Pheno (sample ID) and row names as row names in Anno (sequences.)

Value

The list of normalized tables (data.frames) from a PAC-object.

Updated S4 PAC-object.

See Also

Other PAC methods: anno(), counts(), names,PAC-method, pheno(), show.PAC(), summary()

Examples

load(system.file("extdata", "drosophila_sRNA_pac_filt_anno.Rdata", 
                  package = "seqpac", mustWork = TRUE))

# extra fuctionality with s4 PAC-object:
names(pac)
length(pac)
nrow(pac)
ncol(pac)
rownames(pac)
colnames(pac)
pheno(pac) 
head(anno(pac))
head(counts(pac))
head(norm(pac)$cpm)

Danis102/seqpac documentation built on Aug. 26, 2023, 10:15 a.m.