Accurate mapping of RNA-seq reads for splice junction discovery.

Programs location

/usr/local/mapsplice/bin

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

Example

$ module load mapsplice     
$ mapsplice command 1
$ mapsplice command 2

Documentation

http://www.netlab.uky.edu/p/bioinfo/MapSpliceManual