NEWS

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Glimma 2.6.0

• Fixed glimmaMA creating blank plots when gene annotation contains "gene" column

Glimma 2.0.0

• Brand new backend and API with major changes
• Plots can now be embedded in html reports
• Plots can now be saved
• Data from gene annotation and counts can now be saved
• Added many plot customisation options in MDS plot

Glimma 1.9.4

• Fixed tests for R4.0.0
• Fixed examples for limma voom (normlization argument is now normalize.method)

Glimma 1.6.0

• Added table to MDS plot.
• Changed encoding of javascript data to be more compact
• Fixed handling of top and gene.selection parameters in glMDSPlot

Glimma 1.3.0

• Added highlighting to bars in MDS plot.
• Added interaction with table when clicking on points in MD plot.
• Changed expressions to default to no transformation.
• Changed default colours.
• Changed style of table.
• Changed size of highlighted points.

Glimma 1.2.0

• Added option to turn off internal cpm transform (transform=FALSE) in MD Plot.
• Added gridlines to MD Plot.
• Added enter to search on MD plot table search box.
• Added sample.cols argument to MD Plot.
• Added data.frame handling for groups argument in MDS plot.
• Added option to not use counts argument.
• Added option to not use anno argument.
• Added glXYPloy for more general plotting.
• Added option to use numerical value for "groups" in MD Plot.
• Fixed multiple plots in same directory overwriting each other's data.
• Fixed logical values in annotation breaking graphs.
• Fixed numeric values not working for colours.

Glimma 1.1.0

• Added tables to MD Plot.

Glimma 1.0.0

• Bioconductor release version.

Glimma 0.99.4

• Added sample colours for MD plot.
• Added DESeqResults method for glMDPlot

Glimma 0.99.3

• Imported p.adjust for relevant functions.

Glimma 0.99.2

• Added don't test cases for non-exported functions to pass checks.

Glimma 0.99.1

• Initial package creation.