**RNA-seq 2G** is a web portal with >20 statistical methods that perform two-group analysis of differential gene expression. It uses read count data from RNA-seq or similar data matrix as input and generates test statistics in consistent format as output.

Introduction

Two-group comparison of differential expression (DE) is the most common analysis of transcriptome data. For RNA-seq data, the comparison is usually performed on a gene-level matrix of read counts, with the read counts corresponding to the number of sequencing reads mapped to each gene in each RNA-seq sample.

Statistical methods that have been applied to two-group DE of RNA-seq data are widely different in terms of their data distribution assumption, input/output format, performance, sensitivity, and user-friendliness.

require(knitr);
require(DEGandMore); 
require(awsomics); 
data("DeMethodMeta");

tbl <- data.frame(Name=DeMethodMeta[[1]], Call=rownames(DeMethodMeta), DeMethodMeta[, 2:9], stringsAsFactors = FALSE);
tbl[[1]] <- AddHref(tbl[[1]], DeMethodMeta$Link)
**Table 1** DE method features.
`r kable(tbl, row.names=FALSE)`

Run DE analysis

Prepare inputs

Read count matrix

Grouping samples

Other parameters

Run DE analysis online

Run DE analysis offline

Browse DE results

Test statistics


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zhezhangsh/DEGandMore documentation built on Sept. 22, 2022, 9:55 a.m.