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AStalavista | Dynamic and flexible analysis of alternative splicing events in custom gene datasets

Allows to dynamically identify, extract and display complex alternative splicing (AS) events from annotated genes. AStalavista is an alternative splicing transcriptional landscape visualization tool for investigating and comparing types and distributions of the different AS events found whole genome annotations as well as user provided gene sets. Arbitrarily complex combinations of hitherto described AS events can be distinguished, either visually or by representation in a univocal notation system. AStalavista is applicable even if the sequencing/annotation process has not been completed.

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AStalavista classification

AStalavista specifications

Unique identifier:
OMICS_01943
Interface:
Command line interface
Operating system:
Unix/Linux
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes
Software type:
Toolkit/Suite
Restrictions to use:
None
License:
BSD 3-clause “New” or “Revised” License
Version:
4.0
Source code URL:
http://sammeth.net/fisheye/browse/Barna/barna.astalavista

Subtools

  • ASTA
  • VISTA
  • SCORER
  • ASTAFUNK

AStalavista distribution

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AStalavista classification

AStalavista specifications

Unique identifier:
OMICS_01943
Restrictions to use:
None
Input format:
GTF, TXT
Output format:
GTF, ASTA
Stability:
Stable
Interface:
Web user interface
Input data:
A set of transcripts with known exon–intron structure (e.g. from mRNAs or ESTs) or a list of genes/transcripts/proteins IDs.
Output data:
A result page showing a list where each event type is depicted and its unique code in the relative-position notation is given and a graphical overview in form of a pie diagram that displays the distribution of events across the groups, considering differentially each type of simple event and pooling the others in one group.
Computer skills:
Basic

Subtools

  • ASTA
  • VISTA
  • SCORER
  • ASTAFUNK

AStalavista support

Documentation

Maintainers

  • Sylvain Foissac <>
  • Michael Sammeth <>
This tool is not maintained anymore.

Additional information

http://sammeth.net/confluence/display/ASTA/1+-+Introduction

Credits

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Publications

Institution(s)

Centre de Regulació Genòmica, Barcelona, Spain

Funding source(s)

Supported by a post-doctoral fellowship.

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