CAFU – A Galaxy framework for exploring unmapped RNA-Seq data

CAFU

:: DESCRIPTION

CAFU is a Galaxy-based bioinformatics framework for comprehensive assembly and functional annotation of unmapped RNA-seq data from single- and mixed-species samples which integrates plenty of existing next-generation sequencing (NGS) analytical tools and our developed programs, and features an easy-to-use interface to manage, manipulate and most importantly, explore large-scale unmapped reads.

::DEVELOPER

Ma Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web browser

:: DOWNLOAD

CAFU

:: MORE INFORMATION

Citation

Chen S, Ren C, Zhai J, Yu J, Zhao X, Li Z, Zhang T, Ma W, Han Z, Ma C.
CAFU: a Galaxy framework for exploring unmapped RNA-Seq data.
Brief Bioinform. 2020 Mar 23;21(2):676-686. doi: 10.1093/bib/bbz018. PMID: 30815667; PMCID: PMC7299299.

ballaxy – Galaxy-based workflow toolkit for Structural Bioinformatics

ballaxy

:: DESCRIPTION

ballaxy is a workflow framework for structure based computational biology based on the Galaxy workflow engine.

::DEVELOPER

BALL Team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / MacOsX / Windows
Web Server
C++ Comipiler

:: DOWNLOAD

ballaxy

:: MORE INFORMATION

Citation:

ballaxy: web services for structural bioinformatics.
Hildebrandt AK, Stöckel D, Fischer NM, de la Garza L, Krüger J, Nickels S, Röttig M, Schärfe C, Schumann M, Thiel P, Lenhof HP, Kohlbacher O, Hildebrandt A.
Bioinformatics. 2014 Sep 2. pii: btu574.

BioBlend 0.16.0 – Python library for interacting with CloudMan and Galaxy‘s API

BioBlend 0.16.0

:: DESCRIPTION

BioBlend is a unified API in a high-level language (python) that wraps the functionality of Galaxy and CloudMan APIs.

::DEVELOPER

Enis Afgan

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Windows/MacOsX/Linux
Python

:: DOWNLOAD

BioBlend

:: MORE INFORMATION

Citation

Bioinformatics. 2013 Jul 1;29(13):1685-6. doi: 10.1093/bioinformatics/btt199. Epub 2013 Apr 28.
BioBlend: automating pipeline analyses within Galaxy and CloudMan.
Sloggett C1, Goonasekera N, Afgan E.

QMLGalaxyPortal 1.2.5 – A mobile QML app for interfacing with the Galaxy API

QMLGalaxyPortal 1.2.5

:: DESCRIPTION

QMLGalaxyPortal is quick and easy way to check the status of biomedical research on Galaxy and review your history.

::DEVELOPER

QMLGalaxyPortal team

:: SCREENSHOTS

:: REQUIREMENTS

iOS/ Android

:: DOWNLOAD

QMLGalaxyPortal

:: MORE INFORMATION

Citation:

Galaxy Portal: Interacting with the Galaxy platform through mobile devices.
Børnich C, Grytten I, Hovig E, Paulsen J, Čech M, Sandve GK.
Bioinformatics. 2016 Jan 27. pii: btw042

Galaxy 19.09 – Evolutionary and Data Processing Module Development

Galaxy 19.09

:: 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.