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RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

Bo Li1 and Colin N Dewey12*

Author Affiliations

1 Department of Computer Sciences, University of Wisconsin-Madison, Madison, WI, USA

2 Department of Biostatistics and Medical Informatics, University of Wisconsin-Madison, Madison, WI, USA

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BMC Bioinformatics 2011, 12:323  doi:10.1186/1471-2105-12-323

Published: 4 August 2011

Additional files

Additional file 1:

Example plots generated by rsem-plot-model.

Format: PDF Size: 100KB Download file

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Open Data

Additional file 2:

Accuracy of four RNA-Seq quantification methods with the Ensembl reference set.

Format: PDF Size: 122KB Download file

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Open Data

Additional file 3:

Additional accuracy measures for RNA-Seq predictions vs. qRT-PCR values for MAQC samples.

Format: PDF Size: 34KB Download file

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Open Data

Additional file 4:

Running time and memory usage of quantification methods on SE and PE data with the Ensembl reference set.

Format: PDF Size: 21KB Download file

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Open Data

Additional file 5:

Accuracies obtained from RNA-Seq data sets with various properties and the Ensembl reference set.

Format: PDF Size: 46KB Download file

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Open Data

Additional file 6:

The effect of quality score modeling on quantification accuracy with the Ensembl reference set.

Format: PDF Size: 20KB Download file

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Open Data

Additional file 7:

Accuracy of RSEM's credibility interval estimates with the Ensembl reference set.

Format: PDF Size: 19KB Download file

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Open Data