Skip to content

CHANGELOG.md

Latest commit

 

History

History
77 lines (58 loc) · 2.87 KB

CHANGELOG.md

File metadata and controls

77 lines (58 loc) · 2.87 KB
Raw

Release Notes

[v1.4.6] - 2019-04-08

  • FIXED error where base and quality didn't show up properly in the alignment dialog in the newer versions of JBrowse; caused by change in function parameters in DetailsMixin function

##[v1.4.5] - 2019-03-25

  • FIXED error with strand undefined in newer JBrowse versions; this was caused by a change in how JBrowse stores BAM data

[v1.4.4] - 2018-04-27

  • FIXED minor bug where it wouldn't work when using the NeatCanvasFeature plugin and there were multimapped reads

[v1.4.3] - 2017-11-02

  • UPDATED small rna colors
    • 21: blue
    • 22: green
    • 23: purple
    • 24: orange
    • piRNAs: red
    • other: gray
  • FIXED minor bug with opacity in details dialog

[v1.4.2] - 2017-10-02

  • ADDED dialog mode to take screenshots of filtering dialog

[v1.4.1] - 2017-08-17

  • minor bug fixes

[v1.4.0] - 2017-08-08

  • ADDED an HTMLFeature style track to compliment the default canvas style track
  • this is mainly useful for screenshots so reads are div objects not painted on the canvas

[v1.3.1] - 2016-10-04

  • FIXED issue with filtering when changing between multiple non-zero values
  • FIXED some labels to be "mapping quality" not "quality score" to minimize possible confusion

[v1.3.0] - 2016-09-26

  • ADDED filtering option to filter by minimum quality score of reads
  • Able to filter per track or across all tracks

[v1.2.3] - 2016-09-24

  • UPDATED Handle isAnimal better to match MethylationPlugin

[v1.2.2] - 2016-09-23

  • ADDED Option to solid-fill multimappers which will be useful for screenshots if user does not want multimappers to appear different

[v1.2.1] - 2016-09-19

  • FIXED issue with track check boxes IDs that prevented filtering on multiple tracks

[v1.2.0] - 2016-06-10

  • Reads are organized on the y-axis by strand; positive reads on positive-strand y-axis and negative-strand reads on negative y-axis
  • Also includes "max height exceeded" warning independently for the positive and negative y-axis
  • In order to accommodate more data, the individual reads are smaller than the default heights for RNA-seq reads

[v1.1.0] - 2016-06-02

  • ADDED Filtering dialog for all visible tracks
    • Only works on visible tracks and only changes features in which the check box was clicked
    • Colored checkboxes

[v1.0.4] - 2016-04-03

  • FIXED issue with coloring of multi mapped reads; now show transparency when multimapped

[v1.0.3] - 2016-03-25

  • FIXED Correctly display multimapping status in the read detail pop-up

[v1.0.2] - 2016-03-18

  • ADDED Use XM attribute (with sam flag and/or NH attribute) to determine if a read is multi mapped

[v1.0.1] - 2016-03-14

  • UPDATED coloring

[v1.0.0] - 2016-03-09

  • First production ready version
  • Supports coloring and filtering of reads by size
  • Supports animal vs non-animal smRNA scheme (animal includes piRNAs which are 26-31 bp)
  • Supports coloring and filtering based on multimapped status