MapSplice on Helix
Accurate mapping of RNA-seq reads for splice junction discovery.MapSplice was developed at the U. Kentucky Bioinformatics lab.
The environment variable(s) need to be set properly first. The easiest way to do this is by using the modules commands, 'module load mapsplice' , as in the example below.
Frequently used module commands:
$ module load AppName $ module load AppName/AppVersion $ module unload AppName $ module avail $ module avail AppName $ module list $ module switch AppName AppName/AppVersion $ module display AppName
If you use this application very often, in addition to use the 'module' command, you can also set the environmental variables in your /home/UserID/.bashrc or /home/userID/.cshrc file so that it will be done automatically when you login and you don't need to set the environmental variable(s) everytime.
For bash users:
For tcsh/csh users:
How To Use
$ module load mapsplice $ mapsplice command 1 $ mapsplice command 2