LPS package NEWS

Changes in version 1.0.16 (2021-05-29)

• Minor fixes for CRAN submission.

• heat.map() and clusterize() now print character annotation as text, only factors are attributed colors.

Changes in version 1.0.15 (2020-01-07)

• heat.scale() can now handle float and custom labels.

• heat.scale() now prints the title also if horiz=FALSE.

Changes in version 1.0.14 (2019-05-17)

• heat.map() side color palette fixed when there are 8 classes.

• heat.map() side now attributes a color even to unused factor levels.

• heat.map() now attributes colors separately to each 'side' column.

• heat.map() now attributes grey shades to numeric columns in 'side'.

• heat.map() now handles properly matrices with a single row or column.

• 'clust.genes' and 'clust.samples' arguments added to clusterize().

• 'zlim.trim' argument added to heat.map() (previous behavior corresponded to zlim.trim = 0).

• Dendrograms can now be disabled in clusterize().

Changes in version 1.0.13 (2016-10-07)

• 'xaxt' and 'yaxt' arguments added to heat.map().

Changes in version 1.0.12 (2016-05-15)

• plot.LPS() no longer merges multiples gray zones into a single one.

Changes in version 1.0.11 (2015-08-21)

• Dependencies and NAMESPACE updated to comply with new policy.

Changes in version 1.0.10 (2015-02-15)

• 'title' argument added to heat.scale().

• 'mai.top' is now used in heat.map() also without 'side'.

• Default value for 'side.col' updated in heat.map() and relatives.

• README and LICENSE files added.

• Minor DESCRIPTION file updates to comply with new CRAN policies.

Changes in version 1.0.9 (2014-12-17)

• 'font' argument added to heat.map().

Changes in version 1.0.8 (2014-06-06)

• heat.map() and predict.LPS() now return layout arguments.

• 'plot' argument removed from heat.map().

• 'getLayout' argument added to heat.map(), predict.LPS() and clusterize().

• 'mai.top' argument added to heat.map(), predict.LPS() and clusterize().

• plot.LPS() no longer plots axis labels twice.

• heat.scale() behavior according to horiz modified.

• 'customMar' argument added to heat.scale().

Changes in version 1.0.7 (2014-03-31)

• plot.LPS() now offers a 'threshold' argument to plot "gray zone" in Wright's models.

• plot.LPS() now offers a 'values' argument to plot individual values from the training series.

• plot.LPS() now plots the Y axis as a default.

Changes in version 1.0.6 (2014-01-30)

• LPS.coeff() now output 'weighted.t' columns rather than 'weighted.' as expected.

• 't' component added to LPS objects to store unweighted t statistics.

• predict.LPS() now orders and prints unweighted t statistics.

Changes in version 1.0.5 (2014-01-24)

• heat.exp() now makes use of its 'base' argument.

• 'side' and 'expr' inconsistencies in predict.LPS() resolved.

Changes in version 1.0.4 (2013-12-20)

• Reference added to LPS manual page.

• Cosmetic updates in surv.scale() and surv.colors() manual pages.

Changes in version 1.0.3 (2013-10-17)

• predict.LPS() margin inconsistency between heat map and annotation fixed.

• predict.LPS() layout fixed.

Changes in version 1.0.2 (2013-07-30)

• clusterize()'s legend is no longer clipped if too long.

• clusterize()'s legend is no longer plotted if empty (only custom colors).

• heat.map() 'mar' arguments replaced by 'mai', with dynamic defaults (so clusterize and predict.LPS too).

• predict.LPS() error raising in class plot fixed.

• surv.colors() and surv.scale() added.

Changes in version 1.0.1 (2013-07-17)

• heat.map() now orders 'side' according to 'expr' row names as pretented.

• heat.map() now accepts custom hexadecimal colors in 'side'.

• LPS.coeff() no longer relies on Windows internal for variance.

• heat.scale() 'heatPalette' argument renamed in 'col.heatmap' for consistency.

• predict.LPS() output format fixed (probability matrix was broken with plot=TRUE).