Man pages for eclarke/eclectic
Miscellaneous functions for bioinformatics data
| agglomerate | Agglomerates the sample metadata, counts, and taxa info into... |
| blast6_colnames | Default BLAST outfmt 6 column names |
| contam_test | Test for an OTU's (inverse) correlation between its abundance... |
| counts_matrix | Creates a counts matrix from an agglomerated data frame. |
| dynamic_chunk | Creates a chunk for a plot with a given figure height and... |
| heatmap_dims | Find the dimensions of a ggplot2 heatmap. |
| MakeHeatmapData | Prepare agglomerated dataframe for heatmap display. |
| make_square | Uses the number of columns and number of rows in a heatmap to... |
| MakeUnifracData | Calculates the generalized UniFrac distances for an... |
| min_rank | Creates a MinRank vector from an agglomerated data frame. |
| Mode | Find the mode of a logical or numeric vector |
| named_vector | Create a named vector using the values from one column in the... |
| na_zeros | Set zeros to NA |
| PlotHeatmap | Plot a standard rainbow heatmap with faceting. |
| polyatest | Uses a Dirichlet multinomial distribution to test for OTUs in... |
| prune_tree | Prunes a tree to only include specified OTUs. |
| read_blast6 | Reads an output file from BLAST in the outfmt=6 format (tab... |
| reorder_taxa | Reorder levels of subtaxa by parent taxa |
| root_tree | Root a tree using a random node as the root. |
| saturated_rainbow_cts | Saturated rainbow for counts |
| saturated_rainbow_pct | Saturated rainbow for proportions |
| subcolor_pal | Grouped color palette for factors |
| subset_matrix | Subset a (counts) matrix based on the column from a... |
| tax_climber | Finds the lowest taxonomic rank that isn't NA, stopping at... |
