rbiom: Read/Write, Transform, and Summarize 'BIOM' Data
A toolkit for working with Biological Observation Matrix ('BIOM') files.
Features include reading/writing all 'BIOM' formats, rarefaction, alpha
diversity, beta diversity (including 'UniFrac'), summarizing counts by
taxonomic level, and sample subsetting. Standalone functions for
reading, writing, and subsetting phylogenetic trees are also provided.
All CPU intensive operations are encoded in C with multi-thread support.
| Version: |
1.0.3 |
| Depends: |
R (≥ 3.5.0) |
| Imports: |
magrittr, methods, plyr, Rcpp, RcppParallel, rjson, rlang, R.utils, slam, openxlsx |
| LinkingTo: |
Rcpp, RcppParallel |
| Suggests: |
ape, reshape2, rhdf5, testthat |
| Published: |
2021-11-05 |
| Author: |
Daniel P. Smith 
[aut, cre, cph] |
| Maintainer: |
Daniel P. Smith <dansmith at orst.edu> |
| BugReports: |
https://github.com/cmmr/rbiom/issues |
| License: |
AGPL-3 |
| URL: |
https://cmmr.github.io/rbiom/index.html |
| NeedsCompilation: |
yes |
| Materials: |
README NEWS |
| CRAN checks: |
rbiom results |
Documentation:
Downloads:
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