implemented density plots other than for PC1 & PC2#7
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- Edited codaSeq.PCAplot() so that the density plot data depends on the 'PC' argument. Previously it was hard-coded to only draw plots for PC1 and PC2. Whoops. - Edited codaSeq.PCAplot() documentation accordingly (along with some minor typo corrections) - Also added the 'z.warning' argument to cmultRepl() calls in the codaSeq.PCAplot() documentation, and in the CoDaSeq vignette file to prevent any features from being dropped
- Added a missing call to cmultRepl in the example code of codaSeq.PCAvalues() to make sure all values are kept (removes feature only if >99% of values are 0).
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Edited codaSeq.PCAplot() so that the density plot data depends on the 'PC' argument. Previously it was hard-coded to only draw plots for PC1 and PC2. Whoops.
Edited codaSeq.PCAplot() documentation accordingly (along with some minor typo corrections)
Also added the 'z.warning' argument to cmultRepl() calls in the codaSeq.PCAplot() documentation, and in the CoDaSeq vignette file to prevent any features from being dropped