Polyester: simulating RNA-seq datasets with differential transcript expression.

ABSTRACT:

Motivation

Statistical methods development for differential expression analysis of RNA sequencing (RNA-seq) requires software tools to assess accuracy and error rate control. Since true differential expression status is often unknown in experimental datasets, artificially constructed datasets must be utilized, either by generating costly spike-in experiments or by simulating RNA-seq data.

Results

Polyester is an R package designed to simulate RNA-seq data, beginning with an experimental design and ending with collections of RNA-seq reads. Its main advantage is the ability to simulate reads indicating isoform-level differential expression across biological replicates for a variety of experimental designs. Data generated by Polyester is a reasonable approximation to real RNA-s

SUBMITTER: Frazee AC 

PROVIDER: S-EPMC4635655 | biostudies-literature | 2015 Sep

REPOSITORIES: biostudies-literature