Tag: Cloud Computing

Cloud-COPASI 2020 – Biochemical Simulation and Analysis using Cloud Computing

Cloud-COPASI 2020

:: DESCRIPTION

Cloud-COPASI is a web-based tool for running computationally intensive simulation and analysis tasks in parallel on a high-throughput computing pool.

::DEVELOPER

Mendes Research Group

:: REQUIREMENTS

:: DOWNLOAD

 Cloud-COPASI

:: MORE INFORMATION

Myrna 1.2.3 – Cloud-scale Differential Gene Expression for RNA-seq

Myrna 1.2.3

:: DESCRIPTION

Myrna is a cloud computing tool for calculating differential gene expression in large RNA-seq datasets. Myrna uses Bowtie for short read alignment and R/Bioconductor for interval calculations, normalization, and statistical testing. These tools are combined in an automatic, parallel pipeline that runs in the cloud (Elastic MapReduce in this case) on a local Hadoop cluster, or on a single computer, exploiting multiple computers and CPUs wherever possible.

::DEVELOPER

Ben Langmead, Kasper Hansen, and Jeffrey Leek

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / MacOsX / Linux
  • R package
  • Bowtie

:: DOWNLOAD

  Myrna

:: MORE INFORMATION

Citation

Genome Biol. 2010;11(8):R83. doi: 10.1186/gb-2010-11-8-r83. Epub 2010 Aug 11.
Cloud-scale RNA-sequencing differential expression analysis with Myrna.
Langmead B, Hansen KD, Leek JT.

Yabi 9.9.7 – Online Research Environment for Grid, High Performance and Cloud Computing

Yabi 9.9.7

:: DESCRIPTION

Yabi provides users with an intuitive, easy to use, abstraction of compute and data environments.

::DEVELOPER

Centre for Comparative Genomics

:: SCREENSHOTS

N/a

:: REQUIREMENTS

  • Linux
  • Python

:: DOWNLOAD

  Yabi

:: MORE INFORMATION

Citation

Yabi: An online research environment for grid, high performance and cloud computing.
Hunter AA, Macgregor AB, Szabo TO, Wellington CA, Bellgard MI.
Source Code Biol Med. 2012 Feb 15;7(1):1. doi: 10.1186/1751-0473-7-1.

CloudBioLinux – Genome Analysis for Cloud Computing platforms

CloudBioLinux

:: DESCRIPTION

CloudBioLinux offers genome analysis resources for cloud computing platforms such as Amazon EC2. The software is a build and deployment system which installs a large selection of Bioinformatics and machine learning libraries on a bare virtual machine (VM) image, freshly installed PC, or in the Cloud.

::DEVELOPER

CloudBioLinux Team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 CloudBioLinux

:: MORE INFORMATION

Citation

Curr Protoc Bioinformatics. 2012 Jun;Chapter 11:Unit11.9.
Using cloud computing infrastructure with CloudBioLinux, CloudMan, and Galaxy.
Afgan E, Chapman B, Jadan M, Franke V, Taylor J.