seriation_1.2-8

New features

• get_seriation_method now has better information and also show available control parameters.

Bugfixes

• GA: Updated parameter names after change in package ga.

seriation_1.2-5

New features

• bertinplot: panel colors can now be specified in highlight and as shading.function.

Bugfixes

• bertinplot: fix white squares when frame = TRUE (by Dirk Seidensticker).
• seriation method "BEA" has now a slight code improvement (suggested by RichardKav)
• Fixed compilation warnings in Fortran code.

seriation_1.2-3

Bugfixes

• seriation method "BEA" is now not longer masked by "BEA_TSP".
  Also the FORTRAN calls now work.
• SPIN: making the matrix doubly stochastic now checks
  all rows/columns (reported and fixed by cerebis)

seriation_1.2-2

New features

• Added new seriation method SA which provides simulated annealing for all
  criterion measures.
• Added criterion Cor_R (ME for the moment ordering algorithm by
  Deutsch and Martin).
• Added uniscale to produce a unidimensional scaling configuration given
  a distance matrix and a permutation.
• Criterion gained parameter force_loss (default is FALSE). Merit measures
  are converted into loss values by multiplying with -1.
• Added Supreme Court dataset.

Changes and bugfixes

• Default for seriate (dist) and dissplot is now "Spectal" since it
  gives a better tradeoff between quality and speed.
• Seriaiton method ARSA's control argument nreps is now for consistency
  called reps.
• Criterion: dist objects are now automatically converted into a
  similarity matrix for ME, Moore_stress and Neumann_stress.
• pimage now suppresses the color key for logical matrices and checks for
  all NAs and infinite entries.
• Correction: ARSA minimizes the linear seriation criterion (man
  page and vignette).

seriation_1.2-1

Changes in version 1.2-1 (08/06/2016)

• The default setting for ser_dist and ser_cor is now reverse is TRUE.
• Bugfix: pimage did now work with matrices containing only a single value.
• Bugfix: control parameters for method TSP are now correctly passed on
  (reported by David Aliyev)
• Added new distance measure called absolute pairwise rank differences.

CRAN Release 1.2-0

Changes in version 1.2-0 (2/22/2016)

• Fixed RGAR (w needs to be in [2,n-1]).
• RGAR gained parameter pct to specify the window as a percentage.
• added the lazy path length criterion.
• added the banded anti-Robinson form (BAR) criterion.
• added QAP_Inertia and QAP_BAR solver.
• added DendSer using register_DendSer().
• added GA using register_GA().
• registry now warns and modifies entries with the same name.
• registry now lists methods in alphabetical order.
• seriation method alias Chen was removed. Use R2E.

seriation_1-1.3

• added is.robinson to recognize (pre) Robinson matrices.
• added random.robinson to create random Robinson matrices.
• added seriation methods "QAP_LS" and "QAP_2SUM" (QAP-based seriation).
• added criteria "LS" and "2SUM" from QAP-based seriation.
• Fixed Spectral_norm seriation.
• hmap now honors zlim also in dendrogram-based maps.
• hmap gained option sym for seriation based maps. showdist can now be one of "none" (default), "row", "column", or "both".
• ser_cor and ser_dist gained parameter y. ser_cor gained parameter test to perform tests for association.
• added permute method for hclust and dendrogram objects.