ncbi_taxonomy.deleted_nodes

Python

In [1]:

import bedrock_bio as bb

rel = bb.load_table('ncbi_taxonomy.deleted_nodes')

df = rel.limit(5).pl()  # Polars
df = rel.limit(5).df()  # Pandas
df.head()

Out[1]:

	sources	taxon_id
0	[{'url': 'https://ftp.ncbi.nlm.nih.gov/pub/tax...	10000
1	[{'url': 'https://ftp.ncbi.nlm.nih.gov/pub/tax...	1000374
2	[{'url': 'https://ftp.ncbi.nlm.nih.gov/pub/tax...	1000375
3	[{'url': 'https://ftp.ncbi.nlm.nih.gov/pub/tax...	1000376
4	[{'url': 'https://ftp.ncbi.nlm.nih.gov/pub/tax...	1000377

R

In [1]:

library(bedrockbio)

lf <- load_table("ncbi_taxonomy.deleted_nodes")
df <- head(lf, 5) |> collect()

head(df)

Out[1]:

Sample output (5 rows, showing 1 of 2 columns)
   taxon_id
   --------
0  10000
1  1000374
2  1000375
3  1000376
4  1000377

Description

Deleted NCBI Taxonomy nodes, one row per deleted taxon ID.

Partitions

Not partitioned.

Schema

Column	Type	Description
sources	STRUCT(url TEXT, filename TEXT, last_modified_at TIMESTAMPTZ, sha256 TEXT)[]	Source provenance for the row.
taxon_id	TEXT	Deleted taxonomy ID.