# Store and Transfer Amplicon Sequence Data

## Documentation for package ‘strollur’ version 0.1.3

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

## Help Pages

abundance | Get the abundance data for sequences, bins, samples, and treatments in a strollur object
add | Add sequences, reports or resource references to a strollur object
assign | Assign sequence abundances, sequence classifications, bins, bin representative sequences, bin classifications or treatments to a strollur object
clear | clear
copy_dataset | copy_dataset
count | Find the number of sequences, samples, treatments or bins of a given type in a strollur object
export_dataset | export_dataset
get_bin_types | get_bin_types
has_sample | has_sample
has_sequence_strings | has_sequence_strings
import_dataset | Import strollur object from exported data.frame.
is_aligned | is_aligned
is_equal | is_equal
load_dataset | Load strollur object from .rds file
miseq_sop_example | Example strollur object
names | Get the names of various data in a strollur object
new_dataset | new_dataset
new_reference | new_reference
read_dada2 | Create a strollur object from dada2 outputs
read_fasta | read_fasta
read_mothur | Create a strollur object from mothur outputs
read_mothur_cons_taxonomy | read_mothur_cons_taxonomy
read_mothur_count | read_mothur_count
read_mothur_list | read_mothur_list
read_mothur_oligos | read_mothur_oligos
read_mothur_rabund | read_mothur_rabund
read_mothur_shared | read_mothur_shared
read_mothur_taxonomy | read_mothur_taxonomy
read_phyloseq | Create a strollur object from a phyloseq object
read_qiime2 | Create a strollur object from a qiime2 outputs
read_qiime2_feature_table | read_qiime2_feature_table
read_qiime2_metadata | read_qiime2_metadata
read_qiime2_taxonomy | read_qiime2_taxonomy
remove_file | remove_file
report | Get a data.frame containing the given report in a strollur object
save_dataset | save_dataset
sort_dataframe | sort_dataframe
strollur | The 'strollur' object stores the data associated with your amplicon sequence analysis.
strollur_example | strollur_example
summary | Summarize the sequences data, custom reports, and scrapped data in a strollur object
unpack_qiime2_artifact | unpack_qiime2_artifact
write_fasta | write_fasta
write_mothur | write_mothur
write_mothur_cons_taxonomy | write_mothur_cons_taxonomy
write_mothur_count | write_mothur_count
write_mothur_design | write_mothur_design
write_mothur_list | write_mothur_list
write_mothur_rabund | write_mothur_rabund
write_mothur_shared | write_mothur_shared
write_phyloseq | write_phyloseq
write_taxonomy | write_taxonomy
xdev_abundance | Get a data.frame containing the requested abundance data
xdev_add_references | Add resource references
xdev_add_report | Add a report to a strollur object
xdev_add_sequences | xdev_add_sequences
xdev_assign_bins | xdev_assign_bins
xdev_assign_bin_representative_sequences | xdev_assign_bin_representative_sequences
xdev_assign_bin_taxonomy | xdev_assign_bin_taxonomy
xdev_assign_sequence_abundance | xdev_assign_sequence_abundance
xdev_assign_sequence_taxonomy | xdev_assign_sequence_taxonomy
xdev_assign_sequence_taxonomy_tidy | xdev_assign_sequence_taxonomy_tidy
xdev_assign_treatments | xdev_assign_treatments
xdev_count | xdev_count
xdev_get_abundances_by_sample | xdev_get_abundances_by_sample
xdev_get_by_sample | xdev_get_by_sample
xdev_get_list_vector | xdev_get_list_vector
xdev_get_sequences | xdev_get_sequences
xdev_has_sequence_taxonomy | xdev_has_sequence_taxonomy
xdev_merge_bins | xdev_merge_bins
xdev_merge_sequences | xdev_merge_sequences
xdev_names | xdev_names
xdev_remove_bins | xdev_remove_bins
xdev_remove_lineages | xdev_remove_lineages
xdev_remove_samples | xdev_remove_samples
xdev_remove_sequences | xdev_remove_sequences
xdev_report | xdev_report
xdev_set_abundance | xdev_set_abundance
xdev_set_abundances | xdev_set_abundances
xdev_set_dataset_name | xdev_set_dataset_name
xdev_set_sequences | xdev_set_sequences