TCGA-BRCA-some.DGEList
Bundled with sparrow · provided in inst/extdata, read by path with system.file()
Class
DGEList
Elements
3
Missing
0
Format
rds · gzip
version 2 · 816 KB
File
inst/extdata/testdata/TCGA-BRCA-some.DGEList.rds
Fingerprint
fddbc372
About this object
edgeR's container for a count experiment: a genes-by-samples matrix, a samples frame with group, library size, and normalisation factors, and optional gene annotation. R object catalogue
Structure
Distinct
3
Nesting depth
2
Element length
3 – 278,694
Total length
278,705
Nested rows
15,501
Nested columns
8
Nested schema
varies between elements
Elements
Element
Type
Distinct
Missing
Summary
countsinteger18,17500 – 1182607·15,483 × 18 matrixmean 2569
Min.
0
1st Qu.
243
Median
767
Mean
2569.11
3rd Qu.
2038
Max.
1182607
Std. dev
11807.7
Skewness
30.81
Kurtosis
1623
Zeros
1,334
Outliers
27,8240 low · 27824 high
sampleslist80nested·18 rows nested
Element length
18 – 18
Total length
144
Nested rows
18
What is inside it
Element
Type
Distinct
Missing
Summary
group
factor
1
0
118
lib.sizenumeric18022244949 – 71239097mean 3.978e+7
Min.
22244949
1st Qu.
34750884
Median
38523686
Mean
3.97776e+7
3rd Qu.
4.34343e+7
Max.
71239097
Std. dev
1.07409e+7
Skewness
1.132
Kurtosis
1.813
Outliers
10 low · 1 high
norm.factorsnumeric1800.8274 – 1.189mean 1.008
Min.
0.8274
1st Qu.
0.8748
Median
1.0389
Mean
1.0079
3rd Qu.
1.1146
Max.
1.189
Std. dev
0.1283
Skewness
-0.134
Kurtosis
-1.628
sizeFactornumeric1800.6298 – 2.0718mean 0.9912
Min.
0.6298
1st Qu.
0.7915
Median
0.9658
Mean
0.9912
3rd Qu.
1.0575
Max.
2.0718
Std. dev
0.3201
Skewness
1.982
Kurtosis
4.434
Outliers
10 low · 1 high
Sample_ID
character
18
0
28 characters
Patient_ID
character
18
0
12 characters
Cancer_Status
factor
2
0
tumor13normal5
PAM50subtype
factor
3
5
LumA5Basal4Her24
geneslist30nested·15,483 rows nested
Element length
15,483 – 15,483
Total length
46,449
Nested rows
15,483
What is inside it
Element
Type
Distinct
Missing
Summary
symbol
character
15,456
0
0 – 16 characters·28 blank
sizeinteger6,612043 – 115944mean 3580
Min.
43
1st Qu.
1857
Median
2954
Mean
3580.04
3rd Qu.
4611
Max.
115944
Std. dev
2738.67
Skewness
6.797
Kurtosis
202.4
Outliers
6530 low · 653 high
entrez_id
character
15,483
0
1 – 9 characters
The nested tables do not share one set of columns, so there is no single schema to show.
Version history
| Version | Released | Size | Change | Stored as | Confidence |
|---|---|---|---|---|---|
| 3.23 | 2026-04-28 | 3 elements | Unchanged | rds · gzip version 2 · 816 KB | exact |
| 3.22 | 2025-10-29 | 3 elements | Unchanged | rds · gzip version 2 · 816 KB | exact |
| 3.21 | 2025-04-15 | 3 elements | Unchanged | rds · gzip version 2 · 816 KB | exact |
| 3.20 | 2024-10-29 | 3 elements | Unchanged | rds · gzip version 2 · 816 KB | exact |
| 3.19 | 2024-05-06 | 3 elements | Unchanged | rds · gzip version 2 · 816 KB | exact |
| 3.18 | 2023-10-24 | 3 elements | Unchanged | rds · gzip version 2 · 816 KB | exact |
| 3.17 | 2023-04-25 | 3 elements | Unchanged | rds · gzip version 2 · 816 KB | exact |
| 3.16 | 2022-11-01 | 3 elements | Unchanged | rds · gzip version 2 · 816 KB | exact |
| 3.15 | 2022-04-26 | 3 elements | Unchanged | rds · gzip version 2 · 816 KB | exact |
| 3.14 | 2022-03-23 | 3 elements | – | rds · gzip version 2 · 816 KB | exact |