BioHPC Portal Home
UTSW users should connect to portal.biohpc.swmed.edu from the UTSW network or VPN to access all cloud services and other functionality. News & Updates. OnDemand RStudio Now Supported – Run RStudio in a Faster Way; Singularity Now Supported – Run Docker Containers on the BioHPC Cluster; 2018 Training Calendar ; New GPU nodes available – GPUv1 partition ; Publish your project website to the …
https://portal.biohpc.swmed.edu/content/
BioHPC Guides – BioHPC Portal Home
BioHPC Guides. BioHPC tries to provide a wide range of services, accessible through easy web-based cloud services as well as more traditional command line access. The guides section of the portal covers topics of interest to a variety of users to complement our training calendar. Though we try to deliver a comprehensive set of training sessions there isn’t time for us to cover everything – so …
https://portal.biohpc.swmed.edu/content/guides/
Introduction to BioHPC – BioHPC Portal Home
The BioHPC user portal at https://portal.biohpc.swmed.edu is the central location on the web to find information about, and gain access to all of our services. If you use BioHPC heavily you might want to set the portal as your home page, or bookmark it and visit it regularly.
https://portal.biohpc.swmed.edu/content/guides/introduction-biohpc/
Cloud Services – BioHPC Portal Home
NGS Web Toolkit – The BioHPC NGS Web Toolkit, developed in collaboration with the CRI, is a platform for RNASeq analysis, through a modular, guided workflow. Galaxy – Galaxy is a powerful web-based system for designing and running data analysis workflows using many 3rd party tools.
https://portal.biohpc.swmed.edu/content/cloud-services/
Systems – BioHPC Portal Home
Simple web-based tools via the BioHPC Portal. Specialized, research-focused web applications, e.g. Astrocyte. Thin-client and workstation computers that are directly connected to the Nucleus compute cluster. Virtualized servers providing access to a multitude of research software.
https://portal.biohpc.swmed.edu/content/about/systems/
Lamella Cloud Storage (Internal) – BioHPC Portal Home
lamella.biohpc.swmed.edu provides web-based access to BioHPC storage using the OwnCloud cloud-storage platform. lamella is our internal cloud storage system, and is accessible only from the campus network or a VPN connection. Lamella features: 100GB of dedicated cloud space, separate from your BioHPC home/project/work quotas.
https://portal.biohpc.swmed.edu/content/cloud-services/lamella-storage-internal/
BioHPC FTP:: BioHPC Login
Login to BioHPC Flash FTP (EXTERNAL) A UTSW BioHPC account is required to access the FTP service on BioHPC. Files stored and transferred MUST NOT contain PHI or other privacy sensitive information without prior approval.
https://flash.biohpc.swmed.edu/manage/main
FAQs – BioHPC Portal Home
Acknowledging Support from BioHPC. Please use the following statement when acknowledging support from BioHPC. This research was supported in part by the computational resources provided by the BioHPC supercomputing facility located in the Lyda Hill Department of Bioinformatics, UT Southwestern Medical Center, TX. URL: https://portal.biohpc …
https://portal.biohpc.swmed.edu/content/faqs/
BioHPC Home
At the Cornell University Computational Biology Service Unit we have developed a suit of computational biology applications for HPC (BioHPC) that allows researchers from biological laboratories to submit their jobs to a parallel cluster through an easy-to-use web interface, as well as manage their jobs and data.
http://biohpc.net/
BICF Variant Analysis Tools – BioHPC Portal Home
Using IGV on BioHPC–loading files and search 1. File -> Load from File -> Select 2. Search • A locus (for example, chr5:90,339,000-90,349,000) • A gene symbol or other feature identifier (e.g., DPYD or NM_10000000) • A mutation (EGFR:T790M or EGFR:2369C>T) Have the index files in the same folder!
https://portal.biohpc.swmed.edu/media/filer_public/b5/4b/b54bbc33-6c0f-4f5a-b972-3d6fa5342d17/variantanalysisandvisualization.pdf