BioSAVE
BioSAVE 0.11
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Visualize DNA or protein sequences and annotations.   Free
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BioSAVE is a program for visualising DNA or protein sequences and annotations thereof. Annotations is used in a very broad sense here, encompassing any annotation that may be expressed in GFF format.

BioSAVE was initially created by Richard Pollock and Boris Adryan to visualise predicted transcription factor binding sites at various statistical cutoffs. The program then grew to support additional "tracks" of data, such as sequence conservation or ChIP enrichment data alongside the predicted motifs.

Since all of these data were read in from GFF and FASTA files, it was
What's New
Version 0.11:
  • [Optimisation] Search performance for long sequences is vastly improved.
  • [Bug fix] The toolbar sequence search field and sequence selection menu are now functional when running on Leopard.
  • [Bug fix] When loading GFF version 3 files, BioSAVE now presents the option to load the file ignoring version 3-specific features.
  • [Bug fix] No longer crashes if the GFF file contains features beyond the end of the loaded sequence.
  • [Bug fix] Now correctly displays all features whose calculated width is less than 2 pixels at the current zoom level.
Version 0.11:
  • [Optimisation] Search performance for long sequences is vastly improved.
  • [Bug fix] The toolbar sequence search field and sequence selection menu are now functional when running on Leopard.
  • [Bug fix] When loading GFF version 3 files, BioSAVE now presents the option to load the file ignoring version 3-specific features.
  • [Bug fix] No longer crashes if the GFF file more...
Requirements
Intel/PPC, Mac OS X 10.4 or later





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Downloads:878
Version Downloads:878
Type:Education : Science
License:Free
Date:20 May 2008
Platform:PPC 32 / Intel 32 / OS X
Price:Free0.00
Overall (Version 0.x):
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BioSAVE is a program for visualising DNA or protein sequences and annotations thereof. Annotations is used in a very broad sense here, encompassing any annotation that may be expressed in GFF format.

BioSAVE was initially created by Richard Pollock and Boris Adryan to visualise predicted transcription factor binding sites at various statistical cutoffs. The program then grew to support additional "tracks" of data, such as sequence conservation or ChIP enrichment data alongside the predicted motifs.

Since all of these data were read in from GFF and FASTA files, it was only a small step to extend the program to viewing protein sequences and a whole variety of possible annotations, including phosphorylation sites, protein structural annotations, DNA methylation sites and anything else that can be expressed in the versatile GFF format.


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