Upload updated eccDNA dataset

README.md

@@ -1,3 +1,73 @@
----
-license: apache-2.0
----
+---
+license: apache-2.0
+tags:
+- biology
+- genomics
+- dna
+- eccdna
+size_categories:
+- 10K<n<1M
+task_categories:
+- token-classification
+---
+
+# Real vs. Pseudo-eccDNA Discrimination (Gallus gallus)
+
+This dataset supports the **Real vs. Pseudo-eccDNA Discrimination** task for gallus gallus eccDNA.  
+The goal is to train models that can distinguish true eccDNA sequences from pseudo-eccDNAs  
+randomly extracted from linear genomic regions with matched length distributions.
+
+Each entry contains:
+- `sequence`: raw eccDNA sequence (A/T/C/G)
+- `label`:  
+  - `1` → Real eccDNA  
+  - `0` → Pseudo-eccDNA (negative control)
+
+---
+
+## 📁 Folder Structure
+<pre>
+real_vs_pseudo_eccdna_discrimination_gallus_gallus/
+├── data/
+│   └── real_vs_pseudo_eccdna_discrimination_gallus_gallus.csv
+└── README.md
+</pre>
+
+---
+
+## 🚀 Quick Usage
+<pre><code class="language-python">
+from datasets import load_dataset, load_from_disk
+
+# Load from Hugging Face Hub (after upload)
+dataset = load_dataset("your-username/real_vs_pseudo_eccdna_discrimination_gallus_gallus")
+
+# Example: view label distribution
+df = dataset["train"].to_pandas()
+print(df['label'].value_counts())
+</code></pre>
+
+---
+
+## Task Description
+
+True eccDNAs are experimentally verified circular DNA molecules,  
+whereas pseudo-eccDNAs are generated by randomly extracting linear genomic segments  
+to match the true eccDNA length distribution.  
+This task assesses a model’s ability to capture **circular topology** and **regulatory context**  
+beyond simple sequence composition.
+
+---
+
+## Citation
+If you use this dataset, please cite:
+<pre><code class="language-python">
+
+@inproceedings{liu2025eccdnamamba,
+  title={eccDNAMamba: A Pre-Trained Model for Ultra-Long eccDNA Sequence Analysis},
+  author={Zhenke Liu and Jien Li and Ziqi Zhang},
+  booktitle={ICML 2025 GenBio Workshop},
+  year={2025},
+  url={https://openreview.net/forum?id=56xKN7KJjy}
+}
+</code></pre>