res_DegNorm_chr21: Example DegNormClass data

In jipingw/DegNorm: DegNorm: degradation normalization for RNA-seq data

Example DegNormClass data

Description

Example of DegNormClass data from DegNorm package. It is the output from degnorm function for human chromosome 21.

Usage

data("res_DegNorm_chr21")

Format

A DegNormClass list of the following items:

counts

a data.drame of read counts for each gene within each sample.

counts_normed

a data.drame of degradation-normalized read counts for each gene within each sample.

DI

a matrix of degradation index scores for each gene within each sample.

K

normalizing scale factor for each gene within each sample after accounting for degradation normalization.

convergence

convergence tag; 0 = degnorm was not done on this gene because smaller counts or too short length.1 = degnorm was done with baseline selection. 2 = degnorm done without baseline selection because gene length (after filtering out low count regions)<200 bp. 3= baseline was found, but DI score is too large. 4 = baseline selection didn't coverge.

envelop

a list of the envelop curves for all genes.

Examples

data(res_DegNorm_chr21)
summary_DegNormClass(res_DegNorm_chr21)

jipingw/DegNorm documentation built on April 3, 2024, 1:22 a.m.