In zhezhangsh/awsomics:

**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 assumptions on data distribution, input/output format, performance, sensitivity, and user-friendliness, which are summarized in the table below:

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** Analysis methods for differential expression.

`r kable(tbl, row.names=FALSE, format='markdown')`

Name: Method names to be showed on the web portal.
Call: The names of the re-implemented functions in the DEGandMore package.
Default: An arbitrarily selected popular DE methods.
Speed: How much time the DE method takes to finish. Typically, fast methods take a few seconds, medium methods take up to a minute, and slow methods take a few minutes or more. Therefore, the waiting time will be long if any slow methods are selected.
Paired: Whether the method supports paired test.
Logged: Wehther the original method is performed on transformed data in logged scale.
Normalization: Whether the method has its own internal normalization procedure.
Distribution: Which data distribution the original method is based upon.
Test: The statistical test used by the method.
Function: The main function and package within which the method was originally implemented.