KoriBlast full description

KoriBlast 3.2

In this new release, the following features have been added:

1. a new Classification Viewer enabling the analysis of Taxonomy, GeneOntology, InterPro and Enzyme data within the Analysis Module.

2. an NGS-enhanced Global Analysis Module enabling the interactive exploration of 1,000,000+ annotated hits.

3. several user interface enhancements, such as the batch sequence editing feature (NGS applications).

Classification Viewer	Global Analysis Module

This release of KoriBlast is also fully compliant with the new KoriBlast Data Server. Available as a separate product, this software enables the use of a dedicated computer infrastructure to run annotated Blast jobs. The server software is compatible with SGE/OGE and PBS jobs scheduling systems, and is capable of using the standard Blast as well as mpiBlast.

KoriBlast Server - Architecture

Read more in the full release note.

KoriBlast 3.1

In this new release, the following features have been added:

1. KoriBlast integrates a new data storage system enabling to handle large search jobs
2. Share your data with others using the new HTML Export feature
3. The Search Module provides new commands to copy/cut/edit and get statistics of sequences
4. Save default search parameters directly from Blast forms
5. Benefit from user interface enhancements
6. Import and export Databank Descriptors
7. Better handling of sequence Ids and data; speed up of feature retrieval tasks
8. Group HSPs on the Conserved Region Viewer (Analyse Module)
9. EBI updates
10. New support to share multi-user configuration
11. 64 bits executable now available for Windows anc Mac platforms.

Read more in the complete release note

Massive Sequence Editor	Share KoriBlast results with a web browser

A new feature is available for users having the KoriBlast-PathwayExplorer software package: the direct exploration of metabolic pathways from EC-annotated Blast results.

Metabolic Pathway Analysis

PathwayExplorer is developed by our partner, Genostar Bioinformatics

KoriBlast 3.0

In this new release, the following major features have been added:

1. Use the Global Analyse Module to browse interactively very large sets of fully annotated hits using biological classifications, such as NCBI Taxonomy, Gene Ontology, Enzyme Commission and InterPro domains (up to 250,000 hits can be studied at once with 1 Go Ram).
2. Use the Databank Manager Module to automatically install public and personal databanks (Blast, annotations and biological classifications). Creation of taxonomic databank subsets is also possible.
3. Use the redesigned Search Module to run new powerful features, such as global filtering and data retrieval to be applied on existing results.
4. Prepare directly functionaly annotated Blast results. Blast job results can be annotated with the following biological classifications: NCBI Taxonomy, Gene Ontology, Enzyme Commission, InterPro and Pfam domains.

Read more in the complete release note

KoriBlast 2.7

In this new release, the following features have been added:

1. Query NCBI major databanks and get sequences of interest using the Document Viewer's NCBI Entrez DataBase Explorer Tool. Sequence retrieval can be done interactively or in batch mode.
2. Export data in plain text files. Text format includes extended hit table and/or pairwise sequence alignments.
3. View protein sequences using the Hydrophobic Cluster Analysis (HCA) drawing system
4. Benefit from an extended display of summaries in the Search Module.
5. When creating local Blast databanks, KoriBlast now gets Fasta sequences out of these banks, instead of querying the NCBI.
6. For proteomics studies, KoriBlast computes theoretical pI and molecular weight.

Read more in the complete release note

KoriBlast 2.6

In this new release, the following features have been added:

1. PSI-Blast searches are available from the Search Module and the Analyse Module has been adapted to enable extended analysis of the results (see figure below, and view this video)
2. Prepare personal Blast databanks from native GenBank, Genpept, EMBL, SwissProt and Uniprot files, using either plain text or gzipped compressed files (view this video)
3. Install pre-formatted NCBI Blast databanks directly from their native 'tar.gz' files (view this video)
4. Design search filters enabling pattern matching on hit sequences
5. Compare search results to find new, common or deleted hits
6. Export KoriBlast data files and filters to share with colleagues having KoriBlast or BlastViewer
7. New Sequence Viewer to display and manipulate sequences (extract, translate, get compositions) downloaded from public repositories (see figure below)
8. Better handling of large projects involving thousands of sequences

Read more in the complete release note

In this new release, two major tools have been added: a Project Manager and a Distance Tree viewer. The former enables the user to organize his/her search jobs using multi-level hierarchies. The latter provide the user with an integrated viewer aims at exploring distance trees created from query-anchored sequence alignments.

  Other new features include:

1. A new and more compact display of query-anchored alignments, including a Sequence Logo Viewer (Analyse Module)
2. New export formats for images, alignments and trees. Creation of PDF reports (Search and Analyse Modules).
3. The capability of analysing search results procuded by ScanPS (Analyse Module)

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KoriBlast 2.4

In this new release, several user interface improvements have been added in the Search and Analyse Modules.

The Search Module runs a new job scheduler engine and is able to connect a Blast system managed by the Sun Grid Engine. This feature enables labs and companies to use KoriBlast for intensive sequence comparisons while using their own high-performance Blast search system.

During sequence data retrieval, KoriBlast now gets the various databank cross-reference identifiers (PubMed, KEGG, GO, InterPro, Enzyme, etc) that are available for the hit sequences reported in the sequence comparison results.

A new module has been added, namely the Document Viewer, to provide biologists with dedicated viewers to display complex data that does not fit within the Analyse Module frame. In this first release of the Document Viewer Module, KoriBlast provides a 3D structure viewer capable of displaying PDB entries. 

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KoriBlast 2.3

Among various improvements, KoriBlast is now capable of using a WWWBlast server , it provides a graphical interface to setup personal sequence databases and it is now possible to design search strategies combining sequence comparison, data retrieval and data filtering.

KoriBlast 2.2

The new release of KoriBlast provides the client to the EBI WU-Blast server , a Taxonomy data viewer and a graphical configuration editor.

KoriBlast 2.1

This new release of KoriBlast provides more data export capabilities, a new Map viewer, the client to a Local Blast engine. KoriBlast is also ready for Windows Vista.