# R Functions Useful for Community Ecology

## Documentation for package ‘QsRutils’ version 0.2.1

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

%wo% | Remove elements from a vector
arc_sine | arc_sine
asterix | Indicate Significance with Stars
avg_alpha | Average Alpha Diversity (faster implementation)
check_primer_hits | Check Primer Hits
check_var | Check Variance
cld_dunn | CLDs from DUNN
cld_hsd | Make CLD tibble from Tukey HSD Results
clear_warnings | Clear Warnings
comb | comb
comp_assemble | Assemble Comparison Parts
comp_comparisons | Make Comparisons
comp_make_f_tests | Make F Tests
comp_means_sd | Calculate Means and Standard Deviations
comp_prepare_otu_table | Prepare OTU Table
comp_prepare_phyloseq | Prepare Phyloseq
deg2rad | deg2rad
expt | A 16S Experiment Level phyloseq Object
format_taxon | Format a taxon
generate_password | Genererate a Password
get_groups | get_groups
get_plot_limits | Get ggplot Plot Limits
goods | Calculate Good's Coverage
hash_dna_seqs | Hash DNA sequences
its.root | An ITS Experiment Level phyloseq Object
log_arc_sine | log_arc_sine
make_comparisons | Make Multiple Comparisons on Transformed Data
make_letter_assignments | Make Letter Assignments
merge_2_frames | Merge Two Data Frames
ord_labels | Make Ordination Axis Labels
pca_labels | Make PCA Axis Labels
perm | Permutations
plot_df | A Data File in Long Format
plot_transition_stats | Plot DADA2 Transition Stats
print.check_var | Check Variance
prop_filter | Filter OTUs by Abundance
QsRutils | QsRutils: R Functions Useful for Community Ecology
rad2deg | rad2deg
rda_labels | Make RDA Axis Labels
root_phyloseq_tree | Root Tree in phyloseq Object
se | Standard error
sqrt_arc_sine | sqrt_arc_sine
srs_p | srs_p
subset_by_refseq_lengths | Subset physeq by refseq lengths
subset_dist | Subset Distance Matrix
veganotu | Extract Vegan OTU Table
vegansam | Extract Sample Data Table
vegan_stand | Standardize a Phyloseq OTU Table