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@s-andrews s-andrews released this 01 Mar 13:31
· 7 commits to master since this release
v0.12.0
e5c3505

RELEASE NOTES FOR FastQC v0.12.0

This release introduces new functionality as well as resolving some
existing problems.

  • Fix bugs in the per tile plot if zero length sequences are present

  • Add a count of total bases to the Basic Stats output

  • Use better sorting of the best contaminant finding

  • Add a "dup_length" option to specify the length of sequence used
    for detecting duplicates

  • Made the default duplicate detection length 50bp, regardless of
    the length of the library. Previously only sequences over 75bp
    were truncated, now the limit applies to everything

  • Removed the plot of deduplicated duplication levels from the
    duplication plot since it just confused people and everyone ignored
    it.

  • Fixed a bug in iterating through fast5 files in multiple directories

  • Fixed a documentation bug in the Duplicate plot

  • Improved memory handling - default allocation is now 512MB and there
    is a --memory option which can increase the allocated memory without
    having to play with --threads

  • Colours in the per base sequence composition plot have been changed
    to be more colourblind friendly

  • BAM parsing now uses htsjdk on the back end

  • Add a --svg option to make the report use SVG graphics instead of
    PNG. The zip file will always contain both PNG and SVG versions of
    all figures

  • Add line numbers to error messages where parsing errors occur

  • Add an option to delete the zip file if it is uncompressed during
    processing (add --delete on top of --extract)

  • The default adapters removed the SOLID adapter, but added polyA
    and polyG since these can both provide useful information and are
    often trimmed from sequences in a similar manner to adapters.

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