April 2019 Newsletter
Our April newsletter includes 3 new titles and an update to our latest major release of R version 3.5.1. Five new workshops and classes are available on the Harvard Longwood campus.
In addition, we are happy to announce a new workshop based on your feedback from last month's survey:
Using BioGrids for RNA-Seq on AWS and your Laptop
Date: Wednesday, May 15 10:30am-12:00pm Location: TMEC 106 Register Here
Dr. James Vincent from the BioGrids team at Harvard Medical School will provide a 1.5 hour tutorial on the use of AWS and BioGrids to complete an RNA-Seq workflow. Attendees will learn: - the basics of starting AWS compute resources - how to install software using the BioGrids Installer - how to run a simple RNA-Seq workflow - how to transfer results between AWS resources and a local machine.
Please note: the workshop will focus on the practical computing aspects of running an RNA-Seq workflow and not the science behind RNA-Seq.
As a reminder, BioGrids is now available to all Harvard affiliates on a trial basis for the 2019 calendar year.
Register here to try out our software installer, which allows users to choose from 200+ bioinfomatics tools that can be installed as ready-to-run applications on Mac or Linux machines with the click of a button or a short command from the CLI. No need to worry about dependencies or compilation.
BioGrids is supported by a team of scientists and engineers at HMS. We provide direct support to BioGrids members. This includes all aspects of software installation and management. If you need assistance of any kind please send a note to: email@example.com
The BioGrids Installer is an easy to use application that makes installing and managing life sciences software simple and quick.
https://biogrids.org/wiki/client_install A command line version is also available for Macs and Linux. Download using the link button above and register here for activation.
The BioGrids team provides support, infrastructure and testing for scientific software packages. We currently provide over 200 titles in five categories and an additional 1,500 R, python and perl packages and modules. The collection grows weekly. Learn more here: About BioGrids
AWS CLI is a command line interface tool to manage multiple Amazon Web Services and automate them through scripts. Version: 1.16.140
GATK is a software package developed to analyze high-throughput sequencing data capable of taking on projects of any size with a primary focus on variant discovery, genotyping, and data quality assurance. Vversion: 220.127.116.11
R is a free software environment for statistical computing and graphics. This update to version 3.5.1 includes over 250 packages. Updated version: 3.5.1
tmux is a terminal multiplexer: it enables a number of terminals to be created, accessed, and controlled from a single screen. tmux may be detached from a screen and continue running in the background, then later reattached. Vversion: 2.7
Training sessions available to HMS trainees:
Registration for HMS Research Computing's User Training Spring 2019 courses is now open. Space is limited, and registrations are first-come, first-served.
R/Biostatistics Part II 05/01/2019 3-5p TMEC 306 Register
R/Biostatistics Part III 05/08/2019 3-5p TMEC 106 Register
Intro to O2 05/15/2019 3-5p Countway 403 Register
Intro to Git/Github 05/22/2019 3-5p Countway 403 Register
Intermediate O2 05/29/2019 3-5p Countway 403 Register
Summer workshops coming soon.
Need help getting software installed on new machines? Have you been planning to try Amazon Web Services (AWS) cloud computing?
BioGrids can help you get started. We have expertise in bioinformatics, programming, workflow development and high performance computing.
We improve the collection with feedback from the community.
Want to see a new application in BioGrids?
Let us know: firstname.lastname@example.org
BioGrids is supported by the HMS TnT fund and based upon SBGrid.org