Updates
Apr 15, 2013 RSEM v1.2.4 is online now. Fixed a bug that leads to poor parallelization performance in Mac OS systems. Fixed a problem that may halt the 'rsem-gen-transcript-plots", thanks Han Lin for pointing out the problem and suggesting possible fixes. Added some user-friendly error messages for converting transcript BAM files into genomic BAM files. Modified rsem-tbam2gbam so that the original alignment quality MAPQ will be preserved if the input bam is not from RSEM. Added user-friendly error messages if users forget to compile the source codes.
Jan 8, 2013 RSEM v1.2.3 is online now. Fixed a bug in 'EBSeq/rsem-for-ebseq-generate-ngvector-from-clustering-info' which may crash the script.
Jan 8, 2013 RSEM v1.2.2 is online now. Updated EBSeq to v1.1.5 . Modified 'rsem-find-DE' to generate extra output files (type 'rsem-find-DE' to see more information).
Click here for full update information.
Author
RSEM is mainly developed by Bo Li, who is a member of Deweylab.License
RSEM is under the GNU General Public License
Source Code
Documentation
Prebuilt RSEM Indices for Galaxy Wrapper
These indices are based on RefSeq containing NM accession numbers only. That means only curated genes (no experimental, no miRNA, no noncoding). Only mature RNAs. In addition, 125bp Poly(A) tails are added at the end of each transcript.
Mouse Indices, extracted from mouse genome mm9
Human Indices, extracted from human genome hg18
Simulation Data
Simulation Data using Refseq set as reference
Simulation Data using Ensembl set as reference
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Acknowledgements
RSEM was developed with the help of Prof. Colin Dewey.
(last modified on Apr 15, 2013)