Galaxy 18.09 – Evolutionary and Data Processing Module Development

Galaxy 18.09

:: DESCRIPTION

Galaxy is an open, web-based platform for data intensive biomedical research. Whether on the free public server or your own instance, you can perform, reproduce, and share complete analyses.

::DEVELOPER

Galaxy Team

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows /  Mac OsX / Linux
  • Python

:: DOWNLOAD

 Galaxy

:: MORE INFORMATION

Citation

Genome Res. 2009 Nov;19(11):2144-53. Epub 2009 Oct 9.
Windshield splatter analysis with the Galaxy metagenomic pipeline.
Kosakovsky Pond S, Wadhawan S, Chiaromonte F, Ananda G, Chung WY, Taylor J, Nekrutenko A; Galaxy Team.

MassyTools – High-Throughput Targeted Data Processing Tool

MassyTools

:: DESCRIPTION

MassyTools is a data processing tool for targeted high-throughput MALDI-MS data extraction.

::DEVELOPER

Bas Jansen

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux
  • Perl

:: DOWNLOAD

MassyTools

:: MORE INFORMATION

Citation

MassyTools: A High-Throughput Targeted Data Processing Tool for Relative Quantitation and Quality Control Developed for Glycomic and Glycoproteomic MALDI-MS.
Jansen BC, Reiding KR, Bondt A, Hipgrave Ederveen AL, Palmblad M, Falck D, Wuhrer M.
J Proteome Res. 2015 Nov 13.

ZENBU 2.9.1 – Data Integration, Data Processing, and Visualization Web system

ZENBU 2.9.1

:: DESCRIPTION

ZENBU is a data integration, data processing, and visualization web system based around three main web interfaces : an expression data enhanced genome browser interface, a secured user system for data upload and secured data sharing, and a data explorer interface to find and manipulate data across the many supported experimental data types and to find shared user configurations

::DEVELOPER

 FANTOM

:: SCREENSHOTS

N/A

: REQUIREMENTS

  • Linux
  • web2.0 client/server
  • Java
  • c++ server infrastructure

:: DOWNLOAD

 ZENBU

:: MORE INFORMATION

Citation

Severin et al. (2014)
Interactive visualization and analysis of large-scale NGS data-sets using ZENBU.
Nat Biotechnol. 2014 Mar;32(3):217-9. doi: 10.1038/nbt.2840.

BACGrid 1.0 – BAC Data Processing Macro for MS Word

BACGrid 1.0

:: DESCRIPTION

BACGrid is an automated scoring system for the scoring of dot blot films resulting from hybridization screening of large insert genomic libraries.

::DEVELOPER

James C. Estill

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows
  • Word

:: DOWNLOAD

  BACGrid

:: MORE INFORMATION

AFDP v2.4a – Automated Fluorescence Data Processing

AFDP v2.4a

:: DESCRIPTION

AFDP is intended for processing and analysis of a series of fluorescence spectra recorded within a serial experiment like, for example, unfolding or titration series.

::DEVELOPER

Hofmann Laboratory, Eskitis Institute

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • linux/ Windows/ MacOsX
  • Java

:: DOWNLOAD

 AFDP

 :: MORE INFORMATION

Citation

Hofmann, A., Wlodawer, A. (2002)
PCSB – a programme collection for structural biology and biophysical chemistry.
Bioinformatics 18, 209-210.

TimeLapseAnalyzer 1.34 – High Throughput data processing for Live Cell Imaging

TimeLapseAnalyzer 1.34

:: DESCRIPTION

Time Lapse Analyser (TLA) is a free, cross-platform, open source software for high throughput time-lapse data processing for live cell imaging.

::DEVELOPER

TimeLapseAnalyzer team

:: SCREENSHOTS

TimeLapseAnalyzer

:: REQUIREMENTS

  • Windows/MacOsX/Linux
  • MatLab
:: DOWNLOAD

 TimeLapseAnalyzer

:: MORE INFORMATION

Citation

Comput Methods Programs Biomed. 2011 Nov;104(2):227-34. doi: 10.1016/j.cmpb.2011.06.002. Epub 2011 Jun 25.
TimeLapseAnalyzer: multi-target analysis for live-cell imaging and time-lapse microscopy.
Huth J, Buchholz M, Kraus JM, M?lhave K, Gradinaru C, v Wichert G, Gress TM, Neumann H, Kestler HA.

shellfish – Parallel PCA and data processing for Genome-wide SNP data

shellfish

:: DESCRIPTION

shellfish carries out a variety of tasks related to principal component analysis of genome-wide SNP data. Unlike other available software, PCA computations can be carried out in parallel (both on a computing cluster running the Sun Grid Engine, and also in the simple case of a machine with multiple processors). In addition to the PCA calculations, it automates the process of data subsetting and allele-matching, using plink and gtool for file format interconversion where necessary. The aim is that tasks that would otherwise require a complex series of shell commands and/or work in R, can be carried out with a single, straightforward, command.

::DEVELOPER

Dan Davison

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • MacOsX / Linux
  • Python

:: DOWNLOAD

 shellfish

:: MORE INFORMATION