Generate Quality Surrogate Variable Analysis for Degradation Correction

---

Documentation for package ‘qsvaR’ version 1.13.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

degradation_tstats	Degradation time t-statistics
DEqual	Differential expression quality (DEqual) plot
getDegTx	Obtain expression matrix for degraded transcripts
getPCs	PCs from transcripts
get_qsvs	Generate matrix of qsvs
k_qsvs	Apply num.sv algorithm to determine the number of pcs to be included
normalize_tx_names	Remove version number from Gencode/Ensembl transcript names
qSVA	A wrapper function used to perform qSVA in one step.
rse_tx	Example of RSE object with RNA-seq transcript quantification data
select_transcripts	Select transcripts associated with degradation
transcripts	Transcripts for Degradation Models
which_tx_names	Check validity of transcript vectors and return a vector matching indexes in tx1