taxnam.sql: taxname.sql
In MetamapsDB: Network Analysis of Metabolic Pathways and Gene Based Assemblies in Metagenomics
Description
Usage
Arguments
Examples
Description
Faster way of querying the taxid names using structured SQL then querying the graphDB.
Downloads a copy of NCBI's taxdump.tar.gz from ftp.ncbi.nlm.nih.gov/pub/taxonomy/taxdump.tar.gz
and builds a taxid, name, rank table in sqlite3
Usage
1
taxnam.sql(taxids, byID = TRUE, taxrank = "genus")
Arguments
taxids
vector of integers/name representing the taxa of interest
byID
search by ID
taxrank
any of the common taxonomic ranks eg. genus
Examples
1
taxnam.sql(287)
MetamapsDB documentation built on May 1, 2019, 9:23 p.m.
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Description Usage Arguments Examples
Description
Faster way of querying the taxid names using structured SQL then querying the graphDB. Downloads a copy of NCBI's taxdump.tar.gz from ftp.ncbi.nlm.nih.gov/pub/taxonomy/taxdump.tar.gz and builds a taxid, name, rank table in sqlite3
Usage
1 | taxnam.sql(taxids, byID = TRUE, taxrank = "genus")
|
Arguments
taxids |
vector of integers/name representing the taxa of interest |
byID |
search by ID |
taxrank |
any of the common taxonomic ranks eg. genus |
Examples
1 | taxnam.sql(287)
|
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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