Difference between revisions of "Tophat"
Jump to navigation
Jump to search
Moskalenko (talk | contribs) m (Text replace - "<!--Choose sections to enable - OPTIONAL--> |{{#vardefine:mod|1}} <!--Present instructions for running the software with modules -->" to "") |
Moskalenko (talk | contribs) m (Text replace - "|{{#vardefine:intel|}} <!-- E.g. "11.1" --> |{{#vardefine:mpi|}} <!-- E.g. "openmpi/1.3.4" -->" to "") |
||
| Line 8: | Line 8: | ||
|{{#vardefine:url|http://tophat.cbcb.umd.edu/index.html}} | |{{#vardefine:url|http://tophat.cbcb.umd.edu/index.html}} | ||
<!--Compiler and MPI settings - OPTIONAL --> | <!--Compiler and MPI settings - OPTIONAL --> | ||
| − | + | ||
| − | |||
|{{#vardefine:exe|}} <!--Present manual instructions for running the software --> | |{{#vardefine:exe|}} <!--Present manual instructions for running the software --> | ||
Revision as of 17:53, 10 August 2012
|
|
Description
TopHat is a fast splice junction mapper for RNA-Seq reads. It aligns RNA-Seq reads to mammalian-sized genomes using the ultra high-throughput short read aligner Bowtie, and then analyzes the mapping results to identify splice junctions between exons.
Tophat is a part of the Tuxedo suite.
Available Versions
- 1.3.0.
- 1.3.3 beta.
- 1.4.1 (default).
Required Modules
Serial
- tophat
- HPC_TOPHAT_BIN - executable directory
- HPC_TOPHAT_DOC - documents directory