Fix capitalization/wording in analysis plugin

[adswafford]

All of the options in the dropdowns should follow standard capitalization and spacing rules, and b alphabetized. Adding small hints for now, until Qiime2 gets better, should also reduce user confusion.

Parameters in the plug in should be made user-friendly as they are in the Qiime1 processing plugin.

Should be:

Calculate alpha diversity (rarefied features only) Calculate beta diversity (rarefied features only) Filter samples by metadata Rarefy features Summarize taxa (closed reference OTUs only)

Choose command [<- this is already correct] Biom artifact: Parameter set [<- this is already correct] Diversity metric Phylogenetic tree

Abundance-based Coverage Estimator (ACE) metric Berger-Parker dominance index Brillouin's index Chao 1 index Chao 1 confidence interval Dominance measure Effective number of species (ENS)/Probability of intra-or interspecific encounter (PIE) metric Esty’s confidence interval Fisher’s index Gini index Good’s coverage of counts Heip’s evenness measure Kempton-Taylor Q index Lladser's confidence interval Lladser's point estimate Margalef’s richness index McIntosh's dominance index D McIntosh’s evenness measure E Menhinick’s richness index Michaelis-Menten fit to rarefaction curve of observed OTUs Number of distinct OTUs Number of double occurrences (doubletons) Number of single occurrences (singletons) Number of observed OTUs, including singles and doubles Pielou's evenness Robbins’ estimator Shannon's index Simpson’s index Simpson’s evenness measure E Strong’s dominance index (Dw)

Choose command [<- this is already correct] Biom artifact Parameter set [<- this is already correct] Diversity metric Phylogenetic tree

Bray–Curtis dissimilarity Canberra distance Chebyshev distance City-block distance Correlation coefficient Cosine similarity Dice measure Euclidean distance Hamming distance Jaccard similarity index Kulczynski dissimilarity index Manhattan distance Mahalanobis distance Matching components Rogers-Tanimoto distance Russell-Rao coefficients Soergel distance Species-by-species Euclidean Sokal-Michener coefficient Sokal-Sneath index Squared Euclidean distance Weighted Minkowski metric Yule index

Choose command [<- this is already correct] Biom artifact Parameter set [<- this is already correct]

Choose command [<- this is already correct] Biom artifact Parameter set [<- this is already correct] Minimum feature frequency across samples Minimum features per sample SQLite WHERE-clause [provide link if possible] Maximum feature frequency across samples Maximum features per sample

Calculate alpha correlation

Choose command [<- this is already correct] Biom artifact Parameter set [<- this is already correct] Correlation method

Pearson Spearman (Pearson with ranks)

Calculate correlation Calculate group significance Generate principal coordinates analysis (PCoA)

Choose command [<- this is already correct] Distance Matrix artifact Parameter set [<- this is already correct] Number of permutations Correlation method Metadata category

Choose command [<- this is already correct] Distance Matrix artifact Parameter set [<- this is already correct] Number of permutations Analysis method PERMANOVA ANOSIM Metadata category Comparison type Non-pairwise Pairwise

Custom-axis Emperor plot

Choose command [<- this is already correct] PCoA artifact Parameter set [<- this is already correct] Custom axis

[antgonza]

@josenavas, can this be closed?

[josenavas]

Yes - fixed here: https://github.com/qiita-spots/qp-qiime2/pull/18