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Pitzer
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.
Availability and Restrictions
Versions
The following versions are available on OSC clusters:
Gateway
MyOSC now offers the ability for PIs to view the billing statements of current un-billed usage for their projects.
Login to my.osc.edu and navigate to Project -> Billing Statements.
There are two sections:
Current usage
The current usage section provides information usage charges up to the current day.
Keep protected data in proper locations
Protected data must be stored in predetermined locations. The only locations at OSC to store protected data are
(Only with prior approval from OSC may a protected data service project not have a project prefix of PDE).
/fs/ess/PDEXXXX and /fs/scratch/PDEXXXX directories.(Only with prior approval from OSC may a protected data service project not have a project prefix of PDE).
SUG Conference - October 7, 2021
Agenda
Owens, Pitzer
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.
Owens, Pitzer
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.
Ascend, Pitzer
AlphaFold is a software package that provides an implementation of the inference pipeline of AlphaFold v2.0. This is a completely new model that was entered in CASP14 and pusblished in Nature.
Ascend, Owens, Pitzer
The IPython kernel for a Conda/virtual environment must be installed on Jupyter prior to use. This tutorial will walk you though the installation and setup procedure.
Cardinal, Owens, Pitzer
TeX Live is a straightforward way to get up and running with the TeX document production system. It provides a comprehensive TeX system with binaries for most flavors of Unix, including GNU/Linux, macOS, and also Windows. It includes all the major TeX-related programs, macro pacakges, and fonts that are free software, including support for many languages around the world.
Owens, Pitzer
JupyterLab stores the main build of JupyterLab with associated data, including extensions in Application Directory. The default Application Directory is the JupyterLab installation directory where is read-only for OSC users. Unlike Jupyter Notebook, JupyterLab cannot accommodate multiple paths for extensions management.
