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2.0.0.rc1

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@yeban yeban released this 16 Mar 11:01
· 693 commits to master since this release

Summary of changes since version 1.0:

  1. Support for BLAST 2.10.0 and the new BLAST database format.
  2. Results now open in a new page. You can share the link with colleagues or
    bookmark the page and return to it at a later date. Results are saved for 30 days.
  3. We have integrated three new visualisations that facilitate interpretation of BLAST results:
    Length distribution (histogram) of all hits of a query. This is inspired from our work with GeneValidator (https://academic.oup.com/bioinformatics/article/32/10/1559/1742817) and can, for example, help quality-assessment of gene predictions.
    Kablammo visualisation (https://academic.oup.com/bioinformatics/article/31/8/1305/212772) for each query-hit pair indicates clearly which parts of the query match which part of the hits.
    Circos-style plot of all queries and their top hits. This is similar to the circoletto tool (https://academic.oup.com/bioinformatics/article/26/20/2620/194655) but for a small number of queries. For example, it can help visually testing for conserved synteny or gene duplication.
  4. We provide a command-line mechanism for importing a BLAST XML file and visualising it in SequenceServer. This works for DIAMOND as well. We do not yet provide a graphical user interface for this.
  5. The 30 hit limit for FASTA download has been removed. In addition, you can now download
    raw pairwise alignments.
  6. Better support for long-running BLAST searches, for rendering large BLAST results, for
    integrating as part of other websites.
  7. Improved error handling, security enhancements, and a new look.

Changes since the last beta release:

  1. Upgraded to BLAST 2.10.0
  2. We have improved the ability to render "large BLAST results" (thousands of hits). We expect
    this to facilitate visualisation of large gene and repeat families.
  3. Form data is now restored when you press back-button in the browser from the results page.
  4. We have a logo and a new look!