Version 0.2.0: August 5, 2019¶
analyzeClonesis deprecated. The clonal analysis has been added to the main function
defineClonesScoperas an argument
- the out put class is deprecated. Results would be reported as a list if
analyze_clonesset to be true, otherwise a single dataframe is returned.
plot_neighborhoodsfrom clonal analysis has been deprecated.
neighborhoodsfrom clonal analysis has been deprecated.
- New models,
hierarchicalfor hierarchical-clustering based, and
identicalfor clustering among identical junction sequences are added.
- New method for spectral-clustering based model has been added through the
- Switched the meaning of the “inter” and “intra” labels in
calculateInterVsIntrafunction. Now, “inter” is the label used to form distances that mean between clones, and “intra” is the label used to form distances that mean on the inside, within each clone.
- Changed the
plotInterVsIntraoutput from a density plot to a histogram.
- Changed the way to calculate the effective threshold. Now, desntiy approach is used.
Version 0.1.0: October 4, 2018¶
Initial public release.