NEWS

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phenomis 1.15.10

• minor updates

phenomis 1.15.8

• reducing: update of the mzdiff_db.csv file

phenomis 1.15.6

• minor corrections

phenomis 1.15.4

• hypotesting: computation of 'fold change' now adapted to the transformation of the data (as a result, a previous call to 'transforming' is now required)
• plot_hypotesting: new external method to plot volcano and boxplots/dotplots resulting from a statistical test
• methods for ExpressionSet and MultiDataSet objects now deprecated

phenomis 1.15.2

• annotating method deprecated (call to ChEBI API not always responding)

phenomis 1.7.8

• hypotesting: new parameter checks

phenomis 1.7.6

• hypotesting: bug fix for MultiAssayExperiment objects

phenomis 1.7.4

• writing: bug fix when writing MultiAssayExperiment with single colData column

phenomis 1.7.2

• correcting: bug fix when removing features with 0 or NAs in all reference samples

phenomis 1.3.8

• writing (SummarizedExperiment & MAE): metadata.l argument now included

phenomis 1.3.6

• writing (SummarizedExperiment): now saves the metadata as an additional _metadata.rds file

phenomis 1.3.4

• hypotesting: minor documentation update

phenomis 1.3.2

• UTF-8 file encoding for writing (utils::write.table)

phenomis 1.1.2

• minor documentation update