taxize-defunct: Defunct functions in taxize

In taxize: Taxonomic Information from Around the Web

Defunct functions in taxize

Description

The following functions are now defunct (no longer available):

• All COL functions are defunct: ⁠as.colid, ⁠col_children⁠, ⁠col_classification⁠, ⁠col_downstream⁠, ⁠col_search⁠, ⁠get_colid⁠, ⁠get_colid_⁠, ⁠as.data.frame.colid⁠, ⁠children.colid⁠, ⁠classification.colid⁠, ⁠downstream.colid⁠, ⁠id2name.colid⁠, ⁠lowest_common.colid⁠, ⁠synonyms.colid⁠, ⁠upstream.colid'

• col_classification(): Seeclassification()

• tp_classification(): Seeclassification()

• eol_hierarchy(): Seeclassification()

• eol_invasive(): See eol in the originr package.

• use_eol(): EOL no longer requires an API key

• tpl_search(): Use the Taxonstand functions TPL or TPLck directly.

• get_seqs(): This function changed name toncbi_getbyname()()].

• get_genes(): This function changed name toncbi_getbyid()()].

• get_genes_avail(): This function changed name toncbi_search()()].

• ncbi_getbyname(): See ncbi_byname in the traits package.

• ncbi_getbyid(): See ncbi_byid in the traits package.

• ncbi_search(): See ncbi_searcher in the traits package.

• gisd_isinvasive(): See gisd in the originr package.

• ubio_classification(): The uBio web services was down for quite a while, is now (as of 2016-05-09) back up, but we don't trust that it will stay up and available.

• ubio_classification_search(): The uBio web services was down for quite a while, is now (as of 2016-05-09) back up, but we don't trust that it will stay up and available.

• ubio_id(): The uBio web services was down for quite a while, is now (as of 2016-05-09) back up, but we don't trust that it will stay up and available.

• ubio_ping(): The uBio web services was down for quite a while, is now (as of 2016-05-09) back up, but we don't trust that it will stay up and available.

• ubio_search(): The uBio web services was down for quite a while, is now (as of 2016-05-09) back up, but we don't trust that it will stay up and available.

• ubio_synonyms(): The uBio web services was down for quite a while, is now (as of 2016-05-09) back up, but we don't trust that it will stay up and available.

• get_ubioid(): The uBio web services are apparently down indefinitely.

• phylomatic_tree(): This function is defunct. See phylomatic in the package brranching

• phylomatic_format(): This function is defunct. See phylomatic_names in the package brranching

• eubon(): This function is defunct. Use eubon_search()

• tnrs(): This function is defunct. Was too unreliable

• tnrs_sources(): This function is defunct. Was too unreliable

taxize documentation built on April 4, 2025, 2:12 a.m.