* Global changes in v0.0.4:
  * FDSTools will now print profiling information to stdout when the -d/--debug
    option was specified.
  * Fixed bug where specifying '-' as the output filename would be taken
    literally, while it should have been interpreted as 'write to standard out'
    (Affected tools: BGCorrect, Samplestats, Seqconvert, Stuttermark).
  * Added more detailed license information to FDSTools.
* BGEstimate v1.1.0:
  * Added a new option -g/--min-genotypes (default: 3). Only alleles that occur
    in at least this number of unique heterozygous genotypes will be
    considered. This is to avoid 'contamination' of the noise profile of one
    allele with the noise of another. If homozygous samples are available for
    an allele, this filter is not applied to that allele. Setting this option
    to 1 effectively disables it. This option has the same cascading effect as
    the -s/--min-samples option, that is, if one allele does not meet the
    threshold, the samples with this allele are excluded which may cause some
    of the other alleles of these samples to fall below the threshold as well.
* Stuttermodel v1.1.0:
  * Stuttermodel will now only output a fit for one strand if it could also
    obtain a fit for the other strand (for the same marker, unit, and stutter
    depth). This new behaviour can be disabled with a new -O/--orphans option.
  * Fixed bug that caused Stuttermodel to output only the raw data points for
    -1 and +1 stutter when normal output was supressed.
* BGCorrect v1.0.1:
  * Added new column 'weight' to the output. The value in this column expresses
    the number of times that the noise profile of that allele fitted in the
    sample.
* Samplestats v1.0.1:
  * Samplestats will now round to 4 or 5 significant digits if a value is
    above 1000 or 10000, respectively. Previously, this was only done for the
    combined 'Other sequences' values.
  * The 'Other sequences' lines will now also include values for
    total_recovery, forward_recovery, and reverse_recovery.
  * The total_recovery, forward_recovery, and reverse_recovery columns are no
    longer placed to the left of all the other columns generated by
    Samplestats.
  * The help text for Samplestats erroneously listed the X_recovery_pct instead
    of X_recovery.
  * Added support for the new 'weight' column produced by BGCorrect when the
    -a/--filter-action option is set to 'combine'.
* BGPredict v1.0.1:
  * Greatly reduced memory usage.
  * BGPredict will now output nonzero values below the threshold set by
    -n/--min-pct if the predicted noise ratio of the same stutter on the other
    strand is above the threshold. Previously, values below the threshold were
    clipped to zero, which may cause unnecessarily high strand bias in the
    predicted profile.
* BGMerge v1.0.1:
  * Reduced memory usage.
* TSSV v1.0.1:
  * Renamed the '--is_fastq' option to '--is-fastq'. It was the only option
    with an underscore instead of a hyphen in FDSTools.
  * Fixed crash that would occur if -F/--sequence-format was set to anything
    other than 'raw'.
* Libconvert v1.0.1:
  * Specifying '-' as the first positional argument to libconvert will now
    correctly interpret this as "read from stdin" instead of throwing a "file
    not found" error (or reading from a file named "-" if it exists).
* Seqconvert v1.0.1:
  * Internal naming of the first positional argument was changed from 'format'
    to 'sequence-format'. This was done for consistency with the
    -F/--sequence-format option in other tools, giving it the same name in
    Pipeline configuration files.
* Vis v1.0.1:
  * Added -j/--jitter option for Stuttermodelvis (default: 0.25).
  * Vis would not allow the -n/--min-abs and the -s/--min-per-strand options to
    be set to 0.
* Stuttermodelvis v1.0.0beta2:
  * HTML visualisations now support drawing raw data points on top of the fit
    functions. The points can be drawn with an adjustable jitter to reduce
    overlap.
  * Fixed a JavaScript crash that would occur in HTML visualisations if the
    Repeat unit or Marker name filter resulted in an invalid regular expression
    (e.g., when the entered value ends with a backslash).
  * Reduced Vega graph spec complexity by using the new Rank transform to
    position the subgraphs.
  * HTML visualisations made with the -O/--online option of the Vis tool will
    now contain https URLs instead of http.
* Samplevis v1.0.1:
  * Fixed a JavaScript crash that would occur in HTML visualisations if the
    Marker name filter resulted in an invalid regular expression (e.g., when
    the entered value ends with a backslash).
  * Reduced Vega graph spec complexity by using the new Rank transform to
    position the subgraphs.
  * Fixed a glitch where clicking the 'Truncate sequences to' label would
    select the marker spacing input.
  * The 'Notes' table cells with 'BGPredict' in them now get a light orange
    background to warn the user that their background profile was computed.
    If a sequence was explicitly 'not corrected', 'not in ref db', or
    'corrected as background only', the same colour is used.
  * The message bar at the bottom of Samplevis HTML visualisations will now
    grow no larger than 3 lines. A scroll bar will appear as needed.
  * HTML visualisations made with the -O/--online option of the Vis tool will
    now contain https URLs instead of http.
* BGRawVis v1.0.1:
  * Fixed a JavaScript crash that would occur in HTML visualisations if the
    Marker name filter resulted in an invalid regular expression (e.g., when
    the entered value ends with a backslash).
  * Reduced Vega graph spec complexity by using the new Rank transform to
    position the subgraphs.
  * HTML visualisations made with the -O/--online option of the Vis tool will
    now contain https URLs instead of http.
* Profilevis v1.0.1:
  * Fixed a JavaScript crash that would occur in HTML visualisations if the
    Marker name filter resulted in an invalid regular expression (e.g., when
    the entered value ends with a backslash).
  * Reduced Vega graph spec complexity by using the new Rank transform to
    position the subgraphs.
  * HTML visualisations made with the -O/--online option of the Vis tool will
    now contain https URLs instead of http.
* Allelevis v1.0.0beta2:
  * Fixed potential crash/corruption that could occur with very unfortunate
    combinations of sample names and marker names.
  * HTML visualisations made with the -O/--online option of the Vis tool will
    now contain https URLs instead of http.
  * Added two more colours to the legend, such that a maximum of 22 markers is
    now supported without re-using colours.
* Updated bundled D3 to v3.5.17.
* Updated bundled Vega to v2.6.0.