onekp: OneKP metadata file
In ropensci/onekp: Retrieve Data from the 1000 Plants Initiative (1KP)
onekp R Documentation
OneKP metadata file
Description
The object stored here should be exactly the same as the object returned
from retrieve_onekp(). It is stored here for convenience and to save
time in examples (retrieve_onekp takes around 30 seconds to run).
The 1000 Plants Initiative (www.onekp.com) has sequenced the transcriptomes
of over 1000 plant species. This package allows these sequences and metadata
to be retrieved and filtered by code, species or recursively by clade.
Scientific names and NCBI taxonomy IDs are both supported.
Usage
onekp
Format
OneKP object
Main Functions
retrieve_onekp - retrieve all 1KP metadata
filter_by_code - filter metadata by 1KP code
filter_by_clade - filter metadata by clade
filter_by_species - filter metadata by species
download_peptides - get protein sequences linked to metadata
download_nucleotides - get DNA sequences linked to metadata
Author(s)
Zebulun Arendsee <email: zbwrnz@gmail.com>
Bug Reports
Any bugs or issues can be reported at <https://github.com/ropensci/onekp/issues>
ropensci/onekp documentation built on April 16, 2023, 11:27 p.m.
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| onekp | R Documentation |
OneKP metadata file
Description
The object stored here should be exactly the same as the object returned
from retrieve_onekp(). It is stored here for convenience and to save
time in examples (retrieve_onekp takes around 30 seconds to run).
The 1000 Plants Initiative (www.onekp.com) has sequenced the transcriptomes of over 1000 plant species. This package allows these sequences and metadata to be retrieved and filtered by code, species or recursively by clade. Scientific names and NCBI taxonomy IDs are both supported.
Usage
onekp
Format
OneKP object
Main Functions
retrieve_onekp - retrieve all 1KP metadata
filter_by_code - filter metadata by 1KP code
filter_by_clade - filter metadata by clade
filter_by_species - filter metadata by species
download_peptides - get protein sequences linked to metadata
download_nucleotides - get DNA sequences linked to metadata
Author(s)
Zebulun Arendsee <email: zbwrnz@gmail.com>
Bug Reports
Any bugs or issues can be reported at <https://github.com/ropensci/onekp/issues>
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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