OpenMS is a versatile open-source library for mass spectrometry data analysis. Based on this library, we offer a collection of command-line tools ready to be used by end users.
OpenMS: The name of our library, which contains the algorithms. You cannot use this directly, unless you are a programmer.
TOPPView: View and explore LC-MS data, alignments, groups, peptide identifications and more!
TOPPAS: A graphical workflow design tool, which allows to create pipelines from all TOPP tools (and UTILS).
TOPP tools: A set of command line tools, each of which is a building block of an analysis pipeline. These tools chained together in a way that fits the requirements of the user. Accessible from a command prompt/shell or via TOPPAS. See also: TOPP tutorial and TOPP documentation
UTILS: Similar to TOPP tools, but with more supporting character, which you'd rarely use in a productive pipeline - but rather during pipeline construction or parameter optimization. See also: [UTILS documentation UTILS documentation]
module add openms-2.2
jenicek$ ssh skirit.metacentrum.cz skirit$ qsub -I -l select=1:ncpus=2:mem=4gb:scratch_local=1gb -l walltime=1:00:00 took11$ module add gui took11$ gui start
In remote desktop
Singularity docker image
Tutorial for singularity is here
Linux (in MetaCentrum), Windows, iOS