SingleCellAssay 1.0.1 – Infrastructure and Tools for Single Cell Assay Analysis

SingleCellAssay 1.0.1

:: DESCRIPTION

SingleCellAssay is a suit of tools and methods for analysis of single cell assay data in R

::DEVELOPER

RGLAB

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows/MacOsX
  • R

:: DOWNLOAD

 SingleCellAssay

:: MORE INFORMATION

Citation

Bioinformatics. 2013 Feb 15;29(4):461-7. doi: 10.1093/bioinformatics/bts714. Epub 2012 Dec 24.
Data exploration, quality control and testing in single-cell qPCR-based gene expression experiments.
McDavid A1, Finak G, Chattopadyay PK, Dominguez M, Lamoreaux L, Ma SS, Roederer M, Gottardo R.

SBSI 1.4.5 – Systems Biology Software Infrastructure

SBSI 1.4.5

:: DESCRIPTION

SBSI (Systems Biology Software Infrastructure) is a suite of software applications and libraries with the following aims:

  • To provide access to parallelized algorithms for computationally challenging tasks such as parameter optimisation.
  • To enable registered users to run these algorithms on their models and data, using HPC machines.
  • To provide access for users with varying levels of computational modelling experience.

There are three main software components in SBSI: SBSINumerics, SBSIVisual and SBSIDispatcher.

SBSINumerics contains a configurable, parallelized command line application for running parameter estimations.

SBSIVisual is a desktop application, that provides easier access to SBSINumerics functionality for non-programmers, and can display results, run simulations, and interact with systems biology databases.

SBSIDispatcher is a middleware component, that can deploy and manage SBSINumerics procedures on backend servers.

::DEVELOPER

SBSI TeamThe Centre for Systems Biology at Edinburgh

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux / Mac OsX

:: DOWNLOAD

SBSI

:: MORE INFORMATION

Citation

SBSI: an extensible distributed software infrastructure for parameter estimation in systems biology.
Adams R, Clark A, Yamaguchi A, Hanlon N, Tsorman N, Ali S, Lebedeva G, Goltsov A, Sorokin A, Akman OE, Troein C, Millar AJ, Goryanin I, Gilmore S.
Bioinformatics. 2013 Mar 1;29(5):664-665. Epub 2013 Jan 17.