summary: summary(PAC)

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

summary(PAC)

Description

Access the summary list with summarized tables in S4 PAC

Usage

summary(object)

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

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

Arguments

object	A S4 PAC-object containing a summary list ('folder') with normalized data.frames. Can be generated by the PAC_summary function.
value	List of data.frames having the same row names as row names in Anno (sequences).

Value

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

Updated S4 PAC-object.

See Also

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

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.