MotionCor2 uses multi-GPU acceleration to correct anisotropic cryo-electron microscopy images at the single pixel level across the whole frame, making it suitable for single particle and tomographic images. Iterative, patch-based motion detection is combined with spatial and temporal constraints and dose weighting.
The following versions are available on OSC clusters:
VisIt is an Open Source, interactive, scalable, visualization, animation and analysis tool for visualizing data defined on two- and three-dimensional structured and unstructured meshes.
STAR 2.7.9a has been installed with gnu/10.3.0 compilers on Owens and Pitzer. Usage is via the module star/2.7.9a. For help loading an installation, use the command: "module spider star/2.7.9a". That command also emits information on the available executables and installation details.
Quantum Espresso 6.7 is now available on Onwe and Pitzer clusters; visit https://www.osc.edu/resources/available_software/software_list/quantum_e... for usage.
FreeSurfer version 7.2.0 is now available on Owens and Pitzer clusters. Usage via module load freesurfer/7.2.0. Visit https://www.osc.edu/resources/available_software/software_list/freesurfer for more details on configuring your environment.
HMMER is used for searching sequence databases for sequence homologs, and for making sequence alignments. It implements methods using probabilistic models called profile hidden Markov models (profile HMMS). HMMER is designed to detect remote homologs as sensitively as possible, relying on the strength of its underlying probability models.
HMMER is available on the OSC clusters. These are the versions currently available:
AlphaFold version 2.0.0 is now available on Pitzer cluster; usage via module load alphafold.