hgnc.family_hierarchy_closure

Python

In [1]:

import bedrock_bio as bb

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

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

Out[1]:

	sources	parent_family_id	child_family_id	distance
0	[{'url': 'https://storage.googleapis.com/publi...	10	10	0
1	[{'url': 'https://storage.googleapis.com/publi...	100	100	0
2	[{'url': 'https://storage.googleapis.com/publi...	1000	1000	0
3	[{'url': 'https://storage.googleapis.com/publi...	1001	1001	0
4	[{'url': 'https://storage.googleapis.com/publi...	1002	1002	0

R

In [1]:

library(bedrockbio)

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

head(df)

Out[1]:

Sample output (5 rows, showing 3 of 4 columns)
   parent_family_id | child_family_id | distance
   ---------------- | --------------- | --------
0  10               | 10              | 0
1  100              | 100             | 0
2  1000             | 1000            | 0
3  1001             | 1001            | 0
4  1002             | 1002            | 0

Description

Precomputed transitive closure of HGNC gene-family hierarchy relationships.

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_closure.csv file.
parent_family_id	TEXT	HGNC gene-family identifier for the ancestor family.
child_family_id	TEXT	HGNC gene-family identifier for the descendant family.
distance	BIGINT	Number of hierarchy edges from the ancestor to the descendant; zero denotes the same family.