Initial release of the sourmashconsumr R package.
What's Changed
New functionality
- Add functions to read in outputs generated by sourmash in #5, #16, #61
- Add function to import or transform
sourmash taxonomy annotateoutput into a metacoder object in #8, #22 or a phyloseq object in #27 - Functions to plot the output of
sourmash comparein #9 - Functions to plot the output of
sourmash sketchin #17 - Functions to plot the output of
sourmash taxonomy annotatein #23, #32, #37, #60 - Functions to plot the outputs of
sourmash gatherin #30 - Add a function to detect whether multiple strains of the same species are present in a metagenome sample in #50
- Make look, arguments, and behavior of plotting functions consistent in #58, #66
- Refactor
read_gatherandread_taxonomy_annotateto specify col types and testread_gatherin #29
New data
- Add example data to package and document the data generation and contents in #42
New documentation
- Add default packaging info in #1
- Add a README in #44
- Create a vignette documenting how to use the sourmashconsumr package in #46
- Code fixes and new tests for problems I discovered when writing the vignette in #48
- Initialize pkgdown and github action to automatically build a documentation site in #67
- Add developer documentation in #65, #68
New checks
- Add CI workflows for standard checks, linting, and test coverage in #24
- Add Codecov integration to CI workflow in #26
New Contributors
Contributors
taylorreiter