sampleMetadata

Bundled with MicrobiomeBenchmarkData · exported, loads via data()

Class

spec_tbl_df

spec_tbl_df/tbl_df/tbl/data.frame

Dimensions

1,125 × 35

Missing

20,646

Format

rda · bzip2

version 2 · 14 KB

File

data/sampleMetadata.rda

Fingerprint

032e32f2

Format documented

Yes

Source

Source not stated

About this object

A tibble: a data.frame that prints compactly, never converts strings to factors, never adds row names, and can hold list columns. R object catalogue

Declared attributes

Other attributes

Read by name, kind and length, with the value where it is short enough to show. No rule here knows what any of them means.

Attribute	Holds	Length
problems	NULL	0
spec	col_spec	3

Columns

Column

Type

Distinct

Missing

Summary

dataset

character

17 – 32 characters

sample_id

character

745

4 – 9 characters

subject_id

character

144

394

8 – 9 characters

visit_number

numeric

427

1 – 3mean 1.435

Min.

1st Qu.

Median

Mean

1.4355

3rd Qu.

Max.

Std. dev

0.5019

Skewness

0.3274

Kurtosis

-1.72

Longest gap

427

Trailing

427

gender

character

4 – 6 characters

run_center

character

427

3 – 9 characters

body_site

character

5 – 11 characters

body_subsite

character

411

18 – 20 characters

ncbi_accession

character

729

9 – 10 characters

library_size

numeric

979

1 – 76449151mean 5.642e+5

Min.

1st Qu.

2116

Median

3515

Mean

564242

3rd Qu.

6306

Max.

76449151

Std. dev

5.32071e+6

Skewness

10.84

Kurtosis

124.3

Outliers

870 low · 87 high

sequencing_platform

character

5 – 13 characters

pmid

numeric

20534435 – 27329048mean 2.201e+7

Min.

20534435

1st Qu.

20534435

Median

22699609

Mean

2.20113e+7

3rd Qu.

22699609

Max.

27329048

Std. dev

1.22197e+6

Skewness

0.7406

Kurtosis

3.231

Outliers

170 low · 17 high

study_condition

character

2 – 19 characters

disease

character

487

7 characters

sequencing_method

character

3 characters

variable_region_16s

character

4 characters

age

numeric

1,109

21 – 33mean 26.94

Min.

1st Qu.

Median

Mean

26.9375

3rd Qu.

29.25

Max.

Std. dev

4.3431

Skewness

0.177

Kurtosis

-1.445

Longest gap

698

Leading

698

Trailing

411

age_category

character

1,109

5 characters

country

character

698

3 – 7 characters

non_westernized

character

1,109

2 characters

DNA_extraction_kit

character

1,109

6 characters

PMID

numeric

1,109

22699609

number_reads

numeric

1,109

11592657 – 76484564mean 3.938e+7

Min.

11592657

1st Qu.

2.40087e+7

Median

2.89849e+7

Mean

3.93802e+7

3rd Qu.

6.0573e+7

Max.

76484564

Std. dev

2.22694e+7

Skewness

0.2288

Kurtosis

-1.638

Longest gap

698

Leading

698

Trailing

411

number_bases

numeric

409

715

177454 – 7204088572mean 1.443e+8

Min.

177454

1st Qu.

474408

Median

560172

Mean

1.44318e+8

3rd Qu.

668890

Max.

7204088572

Std. dev

8.20364e+8

Skewness

6.413

Kurtosis

42.56

Outliers

271 low · 26 high

Longest gap

698

Leading

698

minimum_read_length

numeric

1,109

median_read_length

numeric

1,109

92 – 100mean 99

Min.

1st Qu.

100

Median

100

Mean

3rd Qu.

100

Max.

100

Std. dev

2.3094

Skewness

-1.949

Kurtosis

2.66

Longest gap

698

Leading

698

Trailing

411

NCBI_accession

character

1,109

19 – 39 characters

curator

character

1,109

12 characters

BMI

numeric

1,109

19 – 31mean 24.12

Min.

1st Qu.

Median

Mean

24.125

3rd Qu.

26.5

Max.

Std. dev

4.7592

Skewness

0.3586

Kurtosis

-1.518

Longest gap

698

Leading

698

Trailing

411

description

character

1,108

3 characters

ethnicity

character

731

5 – 8 characters

numeric

731

4 – 7mean 4.658

Min.

1st Qu.

Median

4.4

Mean

4.6584

3rd Qu.

Max.

Std. dev

0.6676

Skewness

0.9461

Kurtosis

0.798

Outliers

70 low · 7 high

Longest gap

731

Leading

731

nugent_score

numeric

731

0 – 10mean 3.028

Min.

1st Qu.

Median

Mean

3.0279

3rd Qu.

Max.

Std. dev

3.4577

Skewness

0.7501

Kurtosis

-0.9963

Zeros

150

Longest gap

731

Leading

731

nugent_score_category

character

731

3 – 12 characters

community_group

character

731

1 – 3 characters

Version history

Version	Released	Size	Change	Stored as	Confidence
3.23	2026-04-28	1,125 × 35	Unchanged	rda · bzip2 version 2 · 14 KB	exact
3.22	2025-10-29	1,125 × 35	Unchanged	rda · bzip2 version 2 · 14 KB	exact
3.21	2025-04-15	1,125 × 35	Unchanged	rda · bzip2 version 2 · 14 KB	exact
3.20	2024-10-29	1,125 × 35	Unchanged	rda · bzip2 version 2 · 14 KB	exact
3.19	2024-04-30	1,125 × 35	Unchanged	rda · bzip2 version 2 · 14 KB	exact
3.18	2023-10-24	1,125 × 35	Unchanged	rda · bzip2 version 2 · 14 KB	exact
3.17	2023-04-25	1,125 × 35	Unchanged	rda · bzip2 version 2 · 14 KB	exact
3.16	2022-11-01	1,125 × 35	–	rda · bzip2 version 2 · 14 KB	exact