Changes in version 1.3.19 (2020-10-16): + Merged `conditions` branch into `master`. Now the `master` branch can therefore handle multiple conditions. There is a new `conditions` argument in `fitGAM` to handle that, and a condition-specific smoother will be fitted for each lineage. There is also a new test, `conditionTest`, which tests for DE between conditions within a lineage. The way this is done under the hood is exactly like the `patternTest`. Changes in version 1.1.07 (2020-02-27): + added testing against fold change cut-off for all DE tests + default cut-off for deciding the rank of the variance-covariance matrix changed in patternTest and earlyDETest. This can impact the results of these tests. To return to original behaviour, set `eigenThresh=1e-8` argument. Changes in version 0.99.9902 (2019-10-23) + tradeSeq's fitGam and evaluateK functions do not have a seed argument anymore, as per Bioconductor's guidelines. Users are encouraged to set the seed manually with the set.seed function before running those functions for reproducibility purposes. Changes in version 0.99.47 (2019-09-02) + tradeSeq now provides `singleCellExperiment` output o fitGam now accepts a `slingshotDataSet` object as input o All tests and plotting functions accept a `singleCellExperiment` object that contain tradeSeq output Changes in version 0.99.0 (2019-06-22) + Submitted to Bioconductor Changes in version 0.9.0 (2019-03-15) + Reformatted to fulfill Bioconductor guidelines