February 2018 Newsletter
Our February update includes a spotlight on a new R release and the Bioconductor distribution. New installer versions are available for both GUI and command line. These installers include live search, single command save and install of an entire collection and many other improvements. Are there software packages you would like to see available through BioGrids? Send a request to help@biogrids.org.
Welcome to our Pediatric Scholar users! The Pediatric Scholar Installer is the Boston Children's Hospital (BCH) branded version of BioGrids. It includes additional commercial software licensed to BCH. This allows researchers to install site licensed commercial software and open source life sciences software from the same easy to use Pediatric Scholar application.
BioGrids Installer
New to BioGrids? Give it a try today!
The BioGrids Installer is easy to use. Download and activate using the link button above.
Need a jumpstart with your bioinformatics software, workflow development or large scale computations? BioGrids can help. We have expertise in bioinformatics, programming, workflow development and high performance computing. Send a note to: help@biogrids.org
R v 3.4.2 and Bioconductor
This month we release R version 3.4.2. To enhance the utility of this version and simplify installation of R related packages we are including the entire Bioconductor distribution as part of BioGrids. The current version of Bioconductor contains 1,477 packages.
Nature Methods 12(115:121) 2015
Bioconductor is an open-source, open-development software project for the analysis and comprehension of high-throughput data in genomics and molecular biology. The project aims to enable interdisciplinary research, collaboration and rapid development of scientific software. Based on the statistical programming language R, Bioconductor comprises 934 interoperable packages contributed by a large, diverse community of scientists. Packages cover a range of bioinformatic and statistical applications. They undergo formal initial review and continuous automated testing. We present an overview for prospective users and contributors.
Installation Installing R and Bioconductor with the command line installer is as easy as:
./biogrids install bioconductor This will install the complete Bioconductor distribution and R 3.4.2 if it is not already installed. R installations for Mac include the command line version of R as well as the GUI based R.app. Installation through the GUI installer is as simple as selecting the Bioconductor package and clicking Apply.
Do you have a favorite software package you'd like to use in BioGrids or see highlighted here? Drop a note to help@biogrids.org.
For a full listing of available applications see the BioGrids.org (https://biogrids.org/software/) website.
Software Updates
New Software
Software Updates
Training sessions available to HMS trainees
HMS Research computing provides ongoing O2 training.
Mar 6 Affymetrix and Illumina microarray data analysis using R/Bioconductor
Mar 15 Research Data Management - in the data lifecycle
Mar 15 Searching with PubMed
Mar 20 Introduction to Amazon Cloud and UNIX basics
**The Harvard Chan Bioinformatics Core
Mar 21 Introduction to ChIP-seq using high-performance computing
Happy to help.
We'd like to hear from you! We improve the collection with feedback from the community. Want to see a new application in BioGrids? Let us know: help@biogrids.org
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BioGrids is supported by the HMS TnT fund and based upon SBGrid.org