Difference between revisions of "Mothur"
From Montana Tech High Performance Computing
| Line 1: | Line 1: | ||
[https://www.mothur.org Mothur] is an opensource, expandable bioinformatics software for the microbial ecology community. | [https://www.mothur.org Mothur] is an opensource, expandable bioinformatics software for the microbial ecology community. | ||
| − | There are two versions of mothur installed. One is the MPI-enabled version and a non-MPI version. If you just need to use a single compute node, you will want to use the non-MPI version; for multi-node parallelization, you will want to use the MPI version. Using the MPI version for a single node multi-threading parallelization will result in slower performance [https://www.mothur.org/wiki/Makefile_options#MPI_Version]. | + | There are two versions of mothur installed, both are version 1.39.5. One is the MPI-enabled version and another is a non-MPI version. If you just need to use a single compute node, you will want to use the non-MPI version; for multi-node parallelization, you will want to use the MPI version. Using the MPI version for a single node multi-threading parallelization will result in slower performance [https://www.mothur.org/wiki/Makefile_options#MPI_Version]. |
| + | |||
| + | To use mothur, you can use the <code>module</code> command: | ||
| + | |||
| + | non-MPI version <code>module load mothur/1.39.5</code> | ||
| + | |||
| + | MPI version <code>module load mothur/1.39.5_mpi</code> | ||
Revision as of 12:14, 12 April 2018
Mothur is an opensource, expandable bioinformatics software for the microbial ecology community.
There are two versions of mothur installed, both are version 1.39.5. One is the MPI-enabled version and another is a non-MPI version. If you just need to use a single compute node, you will want to use the non-MPI version; for multi-node parallelization, you will want to use the MPI version. Using the MPI version for a single node multi-threading parallelization will result in slower performance [1].
To use mothur, you can use the module command:
non-MPI version module load mothur/1.39.5
MPI version module load mothur/1.39.5_mpi