SourceTracker2

Description

sourcetracker2 website

A major improvement in this version of SourceTracker is the ability to run it in parallel. Currently, parallelization across a single machine is supported for both estimation of source proportions and leave-one-out source class prediction. The speedup from parallelization should be approximately a factor of jobs that are passed. For instance, passing --jobs 4 will decrease runtime approximately 4X (less due to overhead). Note that you can only specify as many jobs as you have sink samples. For instance, passing 10 jobs with only 5 sink samples will not result in the code executing any faster than passing 5 jobs, since there is a 1 sink per job limit. Said another way, a single sink sample cannot be split up into multiple jobs.

Environment Modules

Run module spider sourcetracker2 to find out what environment modules are available for this application.

Environment Variables

• HPC_SOURCETRACKER2_DIR - installation directory
• HPC_SOURCETRACKER2_BIN - executable directory

Citation

If you publish research that uses Sourcetracker2 you have to cite it as follows:

https://pubmed.ncbi.nlm.nih.gov/21765408/

Categories

phylogenetics