NEWS

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pheatmap 1.0.13 (2025-06-05)

• Trying to comply with CRAN policies

pheatmap 1.0.12 (2019-01-04)

• New option angle_col that allows to change the orientation of column labels

pheatmap 1.0.11

• Now values outside of provided breaks correspond to highese/lowest supplied color (thanks Manuela Hummel)

pheatmap 1.0.10 (2018-05-19)

• Fixed the blank page issue for RMarkdown notebooks and printing heatmaps to pdf without using filename parameter
• Can set color of NA now
• Output now is a pheatmap object with same slots as previously, but it has also print and grid.draw functions (thanks Guangchuang Yu)

pheatmap 1.0.9

• Now using pheatmap does not interfer with random seed anymore (thanks Simon de Bernard)

pheatmap 1.0.8 (2015-12-11)

Introduced changes by Tauno Metsalu

• It is now possible to use hclust as an object
• the display of annotation names can be controlled in more detail now

pheatmap 1.0.7 (2015-07-02)

• Trying to comply with CRAN policies

pheatmap 1.0.6

• Added clustering_callback option to give more control over the hierarchical clustering

pheatmap 1.0.5

• Fixed the continuous legend bug

pheatmap 1.0.4

• Make the NA handling in parameters more intelligent

pheatmap 1.0.3

• Make the NA handling more intelligent for annotations

pheatmap 1.0.2 (2015-03-10)

• Trying to comply with CRAN policies

pheatmap 1.0.1

• Fixed small bug with gap calculation

pheatmap 1.0.0

Major rewrite of pheatmap

• Internally pheatmap uses now gtable package and returns the gtable object that gives more flexibility in editing the figure or combining it with other plots
• Introduced the opportunity to separate parts of heatmap using gaps. This can be achieved using gaps_col and gaps_row parameter when the corresponding dimension is not clustered. Alternatively cutree_row and cutree_col introduce the gaps based on the clustering.
• Now it is possible to annotate rows of heatmaps in similar manner as it was possible with columns before.
• Now it is possible to supply custom labels for rows and columns.
• Added names to annotation tracks
• Improved the overall appearance of the plot, concentrating on legends and annotation color schemes

pheatmap 0.7.10

• Can set color to the values shown inside the cells.

pheatmap 0.7.9

• Added option to show arbitrary values within cells, by giving a matrix to display_numbers parameter.

pheatmap 0.7.8

• Made the dendrogram drawing faster

pheatmap 0.7.7 (2013-09-19)

• Fixed a bug related to calculating space for the column and row names. Made the documentation more readable
• Added .Rbuildignore

pheatmap 0.7.6

• Fixed a bug, where the color scales for scaled matrices were not centered to 0.

pheatmap 0.7.5

• Minor bug fix

pheatmap 0.7.4 (2012-11-22)

• Minor bug fixes

pheatmap 0.7.2 (2012-09-03)

• Fixed some bugs introduced by changing the direction of plotting the y axis

pheatmap 0.7.1 (2012-08-29)

• Added option to modify labels of the color scale legend (legend_breaks and legend_labels)
• Changed the direction of plotting to start from the top instead of bottom on y axis.

pheatmap 0.7 (2012-08-13)

• Added opportunity to show also the corresponding numeric values in the cells (see display_numbers parameter).
• Added opportunity to show unused factor levels for column annotations in the legend (drop_levels parameter).
• Changed the order how the rows are drawn when rows are not clustered. Before it started from the bottom, now from the top.
• Changed legend positioning according to the presence of column names
• The function now returns invisibly all the clusterings that it performed.