metacoder

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Show relative abundance instead of n_obs

3

How can I show in the relative abundances for each taxa in the phylogenetic map instead of the number of observations (n_obs)?

mhmism

Thoughts on heat_tree argument formats

4

`heat_tree` has too many arguments for one function (>50) and there are still others I would like to add. Although this does not affect how it works, it is not...

zachary-foster

Also add "long" as an output format since that is better at storing the hierarchy information. - [ ] calc_group_median - [ ] calc_group_rsd - [ ] calc_group_stat - [...

zachary-foster

Observations vs. Taxa, filter_obs vs. filter_taxa, and Taxon_id vs. OTU_id.

1

# Introduction There is confusion amongst myself and others about what some of these words mean. This may be due to ignorance of the jargon used in the field. So...

grabear

Add correlation plots? Or any other helpful plots.

9

By correlation plots (#229) I just mean a scatter plot comparing two variables. Below I've given a use case example from one of our labs projects [vallenderlab](https://github.com/vallenderlab) [also datasnakes](https://github.com/datasnakes). ##...

grabear

heat_tree_matrix assumes default color scale

4

 It should probably get its color from the extreme values of color supplied.

zachary-foster

Metacoder observation table names, calculation functions, and dplyr style additions to the package?

3

# Introduction I'm not sure if this is relevant for all of your workflows, but I was thinking about the naming conventions used in metacoder and phyloseq. For the project...

grabear

``` In heat_tree.default(taxon_id = character(0), supertaxon_id = character(0), : 'taxon_id' and 'supertaxon_id' are empty. Returning NULL. ```

zachary-foster

Color legend

1

Would it be possible to automatically add labels to the color scale based on groups/treatments being compared? I've been manually adding them in, but it seems like something that could...

akiledal

This would work like `mutate` does. EG: ```r heat_tree(obj, node_label = taxon_names, node_size = n_obs, node_color = node_size) ```

zachary-foster