Seqcrawler 0.6.2 – Biological Data Indexing and Browsing Platform

Seqcrawler 0.6.2

:: DESCRIPTION

Seqcrawler provides a complete open source search and store solution for labs or platforms needing to manage large amount of data/meta-data with a flexible and customizable web interface.

::DEVELOPER

Seqcrawler team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Java

:: DOWNLOAD

 Seqcrawler

:: MORE INFORMATION

Citation

Seqcrawler: biological data indexing and browsing platform.
Sallou O, Bretaudeau A, Roult A.
BMC Bioinformatics. 2012 Jul 24;13:175. doi: 10.1186/1471-2105-13-175.

LookSeq 2 – Alignment Visualization, Browsing and Analysis of Genome Sequence data

LookSeq 2

:: DESCRIPTION

LookSeq supports multiple sequencing technologies, alignment sources, and viewing modes; low or high-depth read pileups; and easy visualization of putative single nucleotide and structural variation. The visible range, from whole chromosome to single base resolution, can be set manually or by scrolling or zooming the display with fast, on-the-fly rendering from the server-side alignment database. LookSeq uses a universal database for alignments of different sequencing technologies and algorithms. Sequence data from multiple sources can be viewed separately or aligned in a single display, facilitating direct comparison between datasets. LookSeq can also link to relevant external sites such as PubMed and other online analysis tools, via buttons or double-clicking on the displayed sequence annotation

lookseq Online Version

::DEVELOPER

Dr Magnus ManskeWellcome Trust Sanger Institute

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows / MacOsX
  • WebServer
  • Perl

:: DOWNLOAD

 LookSeq

:: MORE INFORMATION

Citation

Genome Res. 2009 Nov;19(11):2125-32. Epub 2009 Aug 13.
LookSeq: a browser-based viewer for deep sequencing data.
Manske HM, Kwiatkowski DP.

MetaCrop – Browsing and Working with Information from the MetaCrop database

MetaCrop

:: DESCRIPTION

MetaCrop is an Add-on to enable browsing of the content of the handcurated Metacrop database. Users can directly load hand-layouted pathway maps or metabolic network models to use for browsing, pathway exploration, data-mapping and analysis or use them for metabolic modelling. The user can also filter the pathway for species specific information, which will be visually highlighted.

::DEVELOPER

Matthias Klapperstueck and Klaus Hippe.

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

 MetaCrop

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2012 Jan;40(Database issue):D1173-7. Epub 2011 Nov 15.
MetaCrop 2.0: managing and exploring information about crop plant metabolism.
Schreiber F, Colmsee C, Czauderna T, Grafahrend-Belau E, Hartmann A, Junker A, Junker BH, Klapperstück M, Scholz U, Weise S.

GOBU 0.999 – Gene Ontology Browsing Utility

GOBU 0.999

:: DESCRIPTION

GOBU (Gene Ontology Browsing Utility) is a browsing and manipulating tool for Post-Pipeline genetic data, especially useful for data with GO annotations.

::DEVELOPER

Wen-Dar Lin

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux/Windows/MacOsX
  • Java

:: DOWNLOAD

 GOBU

:: MORE INFORMATION

Citation

Lin WD, Chen YC, Ho JM, Hsiao CD.
GOBU: Toward an Integration Interface for Biological Objects.
Journal of Information Science and Engineering. 2006 22(1):19-29.