Package: strollur 0.1.2

Pat Schloss

strollur: Store and Transfer Amplicon Sequence Data

Stores the data associated with your amplicon sequence analysis. This includes nucleotide sequences, abundance, sample and treatment assignments, taxonomic classifications, asv, otu and phylotype clusters, metadata, trees and various reports. It is designed to facilitate data analysis across multiple R packages with utility functions to read / write from 'mothur', 'qiime2', 'dada2', and 'phyloseq'.

Authors:Sarah Westcott [aut], Gregory Johnson [aut], Pat Schloss [cph, cre]

strollur_0.1.2.tar.gz
strollur_0.1.2.tar.gz(r-4.7-arm64)strollur_0.1.2.tar.gz(r-4.7-x86_64)strollur_0.1.2.tar.gz(r-4.6-arm64)strollur_0.1.2.tar.gz(r-4.6-x86_64)
strollur_0.1.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
strollur/json (API)

# Install 'strollur' in R:

install.packages('strollur', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/mothur/strollur/issues

Pkgdown/docs site:https://mothur.org

Uses libs:

c++– GNU Standard C++ Library v3

On CRAN:

cpp

3.65 score 10 scripts 78 exports 87 dependencies

Last updated from:571f48f47e. Checks:6 OK. Indexed: yes.

Target	Result	Time
linux-devel-arm64	OK	331
linux-devel-x86_64	OK	376
source / vignettes	OK	372
linux-release-arm64	OK	387
linux-release-x86_64	OK	354
wasm-release	OK	224

Exports:abundance add assign clear copy_dataset count export_dataset get_bin_types has_sample has_sequence_strings import_dataset is_aligned is_equal load_dataset miseq_sop_example names new_dataset new_reference read_dada2 read_fasta read_mothur read_mothur_cons_taxonomy read_mothur_count read_mothur_list read_mothur_rabund read_mothur_shared read_mothur_taxonomy read_phyloseq read_qiime2 read_qiime2_feature_table read_qiime2_metadata read_qiime2_taxonomy report save_dataset sort_dataframe strollur strollur_example summary unpack_qiime2_artifact write_fasta write_mothur write_mothur_cons_taxonomy write_mothur_count write_mothur_design write_mothur_list write_mothur_rabund write_mothur_shared write_phyloseq write_taxonomy xdev_abundance xdev_add_references xdev_add_report xdev_add_sequences xdev_assign_bin_representative_sequences xdev_assign_bin_taxonomy xdev_assign_bins xdev_assign_sequence_abundance xdev_assign_sequence_taxonomy xdev_assign_sequence_taxonomy_tidy xdev_assign_treatments xdev_count xdev_get_abundances_by_sample xdev_get_by_sample xdev_get_list_vector xdev_get_sequences xdev_has_sequence_taxonomy xdev_merge_bins xdev_merge_sequences xdev_names xdev_remove_bins xdev_remove_lineages xdev_remove_samples xdev_remove_sequences xdev_report xdev_set_abundance xdev_set_abundances xdev_set_dataset_name xdev_set_sequences

Dependencies:ape beeswarm bit bit64 cellranger cli clipr cluster commonmark cpp11 crayon curl data.table diffobj digest dplyr ecodive emmeans estimability farver fillpattern generics ggbeeswarm ggnewscale ggplot2 ggrepel ggtext glue gridtext gtable hms isoband jpeg jsonlite labeling lattice lifecycle litedown magrittr markdown MASS Matrix mgcv microseq mvtnorm nlme numDeriv patchwork permute pillar pkgconfig plyr png prettyunits progress purrr R.methodsS3 R.oo R.utils R6 rbiom Rcereal RColorBrewer Rcpp readr readxl rematch rlang S7 scales stringi stringr tibble tidyr tidyselect tzdb utf8 vctrs vegan vipor viridisLite vroom waldo withr xfun xml2 yaml

Accessing Data

Rendered fromAccessing_Dataset.Rmdusingknitr::rmarkdown