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RSEM

Description

rsem website

RSEM (RNA-Seq by Expectation-Maximization) is a software package for estimating gene and isoform expression levels from RNA-Seq data. The RSEM package provides an user-friendly interface, supports threads for parallel computation of the EM algorithm, single-end and paired-end read data, quality scores, variable-length reads and RSPD estimation. In addition, it provides posterior mean and 95% credibility interval estimates for expression levels. For visualization, The read depth plots can be stacked, with read depth contributed to unique reads shown in black and contributed to multi-reads shown in red. In addition, models learned from data can also be visualized. Last but not least, RSEM contains a simulator.

Environment Modules

Run module spider rsem to find out what environment modules are available for this application.

Environment Variables

  • HPC_RSEM_DIR - installation directory

Categories

biology, ngs, sequencing