brentlabRnaSeqSet: brentlabRnaSeqSet object and constructor

In BrentLab/brentlabRnaSeqTools: Management/QC for brentlab RNAseq data

brentlabRnaSeqSet object and constructor

Description

A container for expression data in brentlab rnaseq databases

Usage

brentlabRnaSeqSet(dds = NULL)

brentlabRnaSeqSetFromDatabase(
  organism,
  username,
  password,
  full_rnaseq_only = TRUE
)

Arguments

dds	a deseq data object. Passing a null object will instantiate with the DESeq2::makeExampleDESeqDataSet
organism	currently, only kn99
username	db username
password	db password
full_rnaseq_only	filter out spikeins before returning. Default TRUE

Value

a brentlabRnaSeqSet for the given organism

See Also

• extending DESeqDataSet

• extending SummarizedExperiment. Note that A SummarizedExperiment object becomes a RangedSummarizedExperiment object when rowRanges are added.

BrentLab/brentlabRnaSeqTools documentation built on Aug. 20, 2023, 9:22 a.m.