Man pages for LXQin/PRECISION.seq
Comparison of Depth Normalization Methods

data.benchmark	MiRNA Sequencing Benchmark Data
data.group	Sample Labels of the test and benchmark data
data.miR.info	MiRNA Information
data.simulation	Simulation Plan
data.test	MiRNA Sequencing Test Data
DE.edgeR	Differential Expression Analysis Using EdgeR
DE.statistics	Statistics for DEA Results Based Golden Standards
DE.voom	Differential Expression Analysis Using Voom-limma Pipeline
fig.CAT	Concordance At The Top Plot
fig.dendrogram	Dendrogram for clustering p-values
fig.FDR_FNR	Selection of normalization methods based on golden standards...
fig.FDR_FNR.boxplot	Boxplot of FDR and FNR for Simulated data
fig.RLE	Relative Log Expression Plot
fig.venn	Venn diagram for p-values
fig.volcano	Volcano Figure
full.pipeline	Full pipeline function
norm.DESeq	Normalization By DESeq (DESeq)
norm.med	Normalization By Median (Med)
norm.PoissonSeq	Normalization By PoissonSeq (PoissonSeq)
norm.QN	Normalization By Quantile Normalization (QN)
norm.RUVg	Normalization By Remove Unwanted Variation Using Control...
norm.RUVr	Normalization By Remove Unwanted Variation Using Residuals...
norm.RUVs	Normalization By Remove Unwanted Variation Using Replicate...
norm.SVA	Normalization By Surrogate Variable Analysis for Sequencing...
norm.TC	Normalization By Total Count (TC)
norm.TMM	Normalization By Trimmed Mean of M-values (TMM)
norm.UQ	Normalization By Upper Quantile (UQ)
pip.norm	Normalization for RNASeq Data
pip.norm.DE	Pipeline of Differential Expression Analysis for RNASeq Data
pip.simulated.data	Full normalization assessment for simulated data
precision.seq	Full normalization assessment for given normalized test data
simulated.data	Simulated Data
simulation.algorithm	The Algorithm for Obtaining the Simulation Plan This...