hgnc.family_hierarchy

Python

In [1]:

import bedrock_bio as bb

rel = bb.load_table('hgnc.family_hierarchy')

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

Out[1]:

	sources	parent_family_id	child_family_id
0	[{'url': 'https://storage.googleapis.com/publi...	1045	1043
1	[{'url': 'https://storage.googleapis.com/publi...	1054	646
2	[{'url': 'https://storage.googleapis.com/publi...	1054	728
3	[{'url': 'https://storage.googleapis.com/publi...	1054	729
4	[{'url': 'https://storage.googleapis.com/publi...	1057	1277

R

In [1]:

library(bedrockbio)

lf <- load_table("hgnc.family_hierarchy")
df <- head(lf, 5) |> collect()

head(df)

Out[1]:

Sample output (5 rows, showing 2 of 3 columns)
   parent_family_id | child_family_id
   ---------------- | ---------------
0  1045             | 1043
1  1054             | 646
2  1054             | 728
3  1054             | 729
4  1057             | 1277

Description

Direct parent-to-child relationships between HGNC gene families.

Partitions

Not partitioned.

Schema

Column	Type	Description
sources	STRUCT(url TEXT, filename TEXT, last_modified_at TIMESTAMPTZ, sha256 TEXT)[]	Provenance for the HGNC gene-family hierarchy.csv file.
parent_family_id	TEXT	HGNC gene-family identifier for the parent family.
child_family_id	TEXT	HGNC gene-family identifier for the direct child family.