NEWS

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immunoClust 1.39.2-3

• CHANGES * fixes BioC 3.21 compiler errors

immunoClust 1.39.1

• CHANGES * in subset.immunoClust keep NAs in label of subset-object * respect already transformed FCS-data in Default_Scales

immunoClust 1.37.12-14

• CHANGES * improvements in meta.clustering process * minor changes in plot.immunoClust

immunoClust 1.37.3-11

• CHANGES * processing time improvements in meta.SON.clustering and meta.SON.normalisation

immunoClust 1.35.3

• CHANGES * bugfix subset.immunoMeta concerning parameter selection for level-plots

immunoClust 1.33.6

• CHANGES * introducing method option for SON/ormalization * a bit clarification in E/M-calls interface

immunoClust 1.33.2

• CHANGES * SON/ormalization back to Version 1.31.9

immunoClust 1.33.1

• CHANGES * normalization variants for combine clustering

immunoClust 1.31.12

• CHANGES * introducing single E,M-steps

immunoClust 1.31.8

• CHANGES * bugfix in plot.immunoClust

immunoClust 1.31.5

• CHANGES * bugfix in meta.export

immunoClust 1.31.3

• NEW FEATURE * introduces meta-clustering with SON/ormalization

immunoClust 1.31.2

• CHANGES * bugfix in meta.export functions

immunoClust 1.31.1

• CHANGES * additional option thres to control meta.SubClustering process * code cleaning

immunoClust 1.29.3

• CHANGES * respect ICL im meta.SubClustering process

immunoClust 1.29.2

• CHANGES * code cleaning

immunoClust 1.29.1

• CHANGES * minor code improvements

immunoClust 1.27.6

• CHANGES * bugfix in default scales

immunoClust 1.27.5

• NEW FEATURES * Default-Scale for immunoMeta-objects

immunoClust 1.27.4

• CHANGES * problems with immunoMeta-objects with 1 cluster

immunoClust 1.27.3

• CHANGES * fixed problems with NA values in FCS data * default BD plot scales removed from meta.process

immunoClust 1.27.2

• CHANGES * class and parameter information added to methods weights and mu

immunoClust 1.27.1

• NEW FEATURES * added method cells for immunoClust-object * improvement in plot.immunoMeta * for.sample option in events.immunoClust

immunoClust 1.25.2

• CHANGES * bugfix immunoMeta contructor from single immunoClust-object

immunoClust 1.25.1

• CHANGES * bugfix im subset.immunoMeta-object

immunoClust 1.23.6

• CHANGES * code cleaning

immunoClust 1.23.3

• CHANGES * fixes a testthat misspelling

immunoClust 1.23.2

• CHANGES * tolerance sufficience in cell-subclustering not required for first model refinement test

immunoClust 1.23.1

• NEW FEATURES * added methods clusterDist, clusterProb, clusterCoeff for immunoMeta-object * starting with unit tests

immunoClust 1.21.2

• CHANGES * plot of no clusters * solves the deprecated warning from flowCore * code cleaning

immunoClust 1.21.1

• CHANGES * authors email contact

immunoClust 1.19.4

• CHANGES * code cleaning

immunoClust 1.19.3

• CHANGES * fixes a compiler error under windows

immunoClust 1.19.1

• CHANGES * bugfix in transformParam.immunoMeta

immunoClust 1.17.4

• CHANGES * bugfix in subset.immunoMeta and subset.immunoClust

immunoClust 1.17.3

• CHANGES * bugfix in subset.immunoMeta

immunoClust 1.17.2

• NEW FEATURES * introducing immunoMeta-class on meta-clustering results to buildup and annotate a hierarchical population/sub-populaton tree
• CHANGES * trail of automated annotation of meta-clusters using scatter-clustering is removed. The approach does not work in a useful manner. Instead the immunoMeta-class is introduced providing methods for a manual annotation of meta-cluster. See man-pages and vignette for more details. * set.seed is removed from clustering routines. To obtain reproducible results with cell.process function set.seed has to set explicit before.

immunoClust 1.17.1

• CHANGES * minor bugfixes and code cleaning * minor additional options for immunoClust.plot/splom

immunoClust 1.15.1

• NEW FEATURES * additional cell-clustering method which is more reliable for samples with cuted edge values (e.g. CyTOF or logarithmic amplified and digitized)
• CHANGES * bugfix in the final ICL calculation for meta-clustering * minor change in cluster re-labeling within sub-clustering routine which leads finally to differences in cluster numbering

immunoClust 1.13.3

• NEW FEATURES * additional variant of t-mixture model fitting respecting truncated observed values
• CHANGES * minor bugfixes and code cleaning

immunoClust 1.9.3

• CHANGES * accidentally change in cell-clustering corrected * minor changes in plot and splom methods

immunoClust 1.9.2

• CHANGES * Optional label parameter in meta-clustering to continue the meta-clustering with an initial cluster to meta-cluster assignment

immunoClust 1.9.1

• CHANGES * Minor improvements and additional option in plot and splom methods * Introduce of ALPHA option also for normalization procedures

immunoClust 1.3.3

• CHANGES * Optional plotting of additional parameter in FCS files * Minor changes in export meta-cluster features
• BUGFIXES * Problems with clustering of 1-D data sets

immunoClust 1.3.1

• CHANGES * The normalization step within the meta.clustering process is improved and extended which also effects the related parameter settings

immunoClust 1.1.1

• NEW FEATURES * A normalization step which the sample cell-clusters to the common meta-cluster model is included an optionally activated during the major meta-clustering process.
• CHANGES * The meta.ME C-binding and return value was modified in a way that the A-Posterior probability matrix Z for a cell-cluster belonging to a meta-cluster is also calculated and returned.
• BUFIXES * Ellipse position were not correct when ploting a parameter subset

immunoClust 1.0.0

• CHANGES * The code was cleaned and modified in the C-binding calls to make it runnable on R 3.1.2. * A bug in the cell.hclust function was fixed, which does not effect the general results but lead to minor differences in concrete numbers.