get_all_data_DESeq2: Get results from DESeq2 and normalized data

In HCGB-IGTP/HCGB.IGTP.DAnalysis: Useful in-house functions for multiple analysis

Get results from DESeq2 and normalized data

Description

When running DESeq2 you usually require to get all statiscal results and normalized data

Usage

get_all_data_DESeq2(dds_obj, coef_n, type = "DESeq2")

Arguments

dds_obj	DESeq2 object (DESeqDataSet)
coef_n	Name of the coefficient obtain from DESeq2::resultsNames(dds_obj))
type	By default RNA is expected and genes, either EntrezID or ENSEMBL ID is used as ID. You can specify XICRA if miRNA is provided and Gene is the combination of miRNA, variant and isomir (e.g hsa-let-7a-2-3p&iso_add3p:1&iso-23-NLJ18XQZD2). If type XICRA provided, columns is splitted into three new columns (parent, variant and UID)

HCGB-IGTP/HCGB.IGTP.DAnalysis documentation built on April 13, 2025, 12:03 a.m.