NEWS

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cogena 1.21.2 (2020-04-21)

• update coExp for R4.0 due to Matrix is now Array.

cogena 1.18.0 (2020-02-25)

• dotplot shows gene number and -log2(q-value) heatmapPEI.

• update vignettes using rmarkdown v2.

• update gene sets and rename gene sets name.

• update AllGeneSymbol using gene symbols from https://www.genenames.org/ (accessed at Feb. 26, 2020)

cogena 1.15.1 (2018-05-30)

• add dotplot in heatmapPEI and vignettes

• multi-group labelling

cogena 1.5.2 (2016-03-31)

• update vignette

cogena 1.5.1 (2015-10-30)

• add gmtlist2file function

cogena 1.5.0 (2015-10-14)

• Bioconductor 3.2 Dev

cogena 1.4.0 (2015-10-14)

• Bioconductor 3.2

cogena 1.2.0 (2015-09-01)

• update exmaple dataset.

• add drug repositioning gene sets and anlaysis.

cogena 1.1.6 (2015-07-14)

• debug cutree.

• values are -log2(FDR) in heatmapPEI instead of -log(FDR).

cogena 1.1.5 (2015-07-14)

• redesign cogena.

• add coExp and clEnrich as a substitute for the original cogena function.

• update vignette

• add tests

• add PPIinfo and hubGene funtions, delete PPIenrichment, netInCluster and plotPPI

cogena 1.1.4 (2015-07-09)

• add PPIenrichment function.

• debug pCluster function.

cogena 1.1.3 (2015-06-25)

• add heatmapEnrich, plotPPI and netInCluster functions.

• sampleColor randomly in heatmapCluster.

cogena 1.1.1 (2015-04-27)

• add Molecular Signatures Database v5.0.

• import mclust instead of suggesting it.

cogena 1.0.0 (2015-04-16)

• cogena is released with Bioconductor 3.1.

cogena 0.99.3 (2015-04-02)

• use makeCluster to creat cluster to avoid checking error from Windows.

cogena 0.99.2 (2015-04-01)

• Update indent based on the coding style of Bioconductor.

• Trim long line.

cogena 0.99.1 (2015-03-31)

• Add runnable examples for functions.

• Update R version dependency from 2.10 to 3.2.

• Add non-empty value sections for some functions.

cogena 0.99.0 (2015-03-27)

• Submit cogena to Bioconductor.