Differential Expression Analysis for RNA-seq data through a robust variance component test

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Documentation for package ‘dearseq’ version 1.21.0

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

Help Pages

dearseq-package	dearseq: Differential Expression Analysis for RNA-seq data through a robust variance component test
baduel	Small portion of RNA-seq data from plant physiology study.
baduel_5gs	Small portion of RNA-seq data from plant physiology study.
baduel_gmt	Small portion of RNA-seq data from plant physiology study.
dearseq	dearseq: Differential Expression Analysis for RNA-seq data through a robust variance component test
dear_seq	Differential expression analyis of RNA-seq data through a variance component test
design	Small portion of RNA-seq data from plant physiology study.
dgsa_seq	Time-course Gene Set Analysis
expr_norm_corr	Small portion of RNA-seq data from plant physiology study.
PBT	PBT gene sets related to kidney transplant
PBT_gmt	PBT gene sets related to kidney transplant
permPvals	Exact permutation p-values
plot.dearseq	Plot method for dearseq objects
plot_hist_pvals	Plotting raw p-values histogram
plot_ord_pvals	Plot of gene-wise p-values
plot_weights	Plotting mean-variance fit for precision weights estimation
print.summary.dearseq	Summary method for dearseq objects
spaghettiPlot1GS	Spaghetti plot for Specific Gene Set
sp_weights	Non parametric local heteroscedasticity weights
summary.dearseq	Summary method for dearseq objects
vc_test_asym	Asymptotic variance component test statistic and p-value
vc_test_perm	Permutation-based variance component test statistic and p-value
voom_weights	Precision weights accounting for heteroscedasticity in RNA-seq count data