fengxy03 commited on
Commit
d7a7ce8
·
verified ·
1 Parent(s): d0f3ae9

Create README.md

Browse files
Files changed (1) hide show
  1. README.md +55 -0
README.md ADDED
@@ -0,0 +1,55 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ ---
2
+ license: mit
3
+ ---
4
+
5
+ ## Summary
6
+ This dataset is constructed based on high-precision annotations from **Ensembl** Database.
7
+ Through a filtration pipeline, genomic element sequences—including **3' UTR, 5' UTR, Exon, and Protein-coding gene**—were extracted and integrated.
8
+ The task aims to evaluate the model's ability to resolve complex, overlapping, and highly sequence-specific features within the genome.
9
+
10
+ ## Usage
11
+ ```python
12
+ from datasets import load_dataset
13
+ #Download the whole dataset
14
+ dataset = load_dataset("BGI-HangzhouAI/Benchmark_Dataset-Genomic_element_classification")
15
+ #Download a specific task
16
+ task_name = "Human_genomic_element_classification"
17
+ dataset = load_dataset(
18
+ "BGI-HangzhouAI/Benchmark_Dataset-Genomic_element_classification",
19
+ data_files = {
20
+ "train": f"{task_name}/train.jsonl",
21
+ "test": f"{task_name}/test.jsonl",
22
+ "eval": f"{task_name}/eval.jsonl",
23
+ }
24
+ )
25
+ ```
26
+
27
+ ## Detailed Information
28
+ | Task | Input fields | Train Seqs| Validation Seqs| Test Seqs |Max sequence length|
29
+ |:-------------:|:------------------:|:---------------:|:-------------------:|:--------------:|:----:|
30
+ | Human_genomic_element_classification |{seq, label} | 12,000 | 6,000 | 6,000 |1,024|
31
+ | Mouse_genomic_element_classification |{seq, label} | 12,000 | 6,000 | 6,000 |1,024|
32
+ | Multi_species_exon_classification |{seq, label} | 16,346 | 7,592 | 7,593 |1,024|
33
+
34
+ ### Human_genomic_element_classification / Mouse_genomic_element_classification
35
+ | Genomic element | Label |
36
+ |:---------:|:-----------:|
37
+ |3' UTR|0|
38
+ |5' UTR|1|
39
+ |Exon|2|
40
+ |Protein-coding gene|3|
41
+
42
+ ### Multi_species_exon_classification
43
+ | Species | Label |
44
+ |:---------:|:-----------:|
45
+ |Human|0|
46
+ |Worm|1|
47
+ |Chicken|2|
48
+ |Fruit Fly|3|
49
+ |Mouse|4|
50
+ |Zebrafish|5|
51
+
52
+ ## Final format
53
+ Datasets are saved in JSONL format. Each file contains:
54
+ - `"seq"` — the DNA sequence string (A/C/G/T, uppercase)
55
+ - `"label"` — multi class indicator