Update README.md

README.md

@@ -1,62 +1,91 @@
 ---
 tags:
 - biology
+- genomics
+- medical
 configs:
 - config_name: demo_coding_vs_intergenomic_seqs
   data_files:
   - split: train
-    path: "demo_coding_vs_intergenomic_seqs/train/*.csv.gz"
+    path: demo_coding_vs_intergenomic_seqs/train/*.csv.gz
   - split: test
-    path: "demo_coding_vs_intergenomic_seqs/test/*.csv.gz"
+    path: demo_coding_vs_intergenomic_seqs/test/*.csv.gz
 - config_name: demo_human_or_worm
   data_files:
   - split: train
-    path: "demo_human_or_worm/train/*.csv.gz"
+    path: demo_human_or_worm/train/*.csv.gz
   - split: test
-    path: "demo_human_or_worm/test/*.csv.gz"
+    path: demo_human_or_worm/test/*.csv.gz
 - config_name: drosphilia_enhancers_stark
   data_files:
   - split: train
-    path: "drosphilia_enhancers_stark/train/*.csv.gz"
+    path: drosphilia_enhancers_stark/train/*.csv.gz
   - split: test
-    path: "drosphilia_enhancers_stark/test/*.csv.gz"
+    path: drosphilia_enhancers_stark/test/*.csv.gz
 - config_name: dummy_mouse_enhancers_ensembl
   data_files:
   - split: train
-    path: "dummy_mouse_enhancers_ensembl/train/*.csv.gz"
+    path: dummy_mouse_enhancers_ensembl/train/*.csv.gz
   - split: test
-    path: "dummy_mouse_enhancers_ensembl/test/*.csv.gz"
+    path: dummy_mouse_enhancers_ensembl/test/*.csv.gz
 - config_name: human_enhancers_cohn
   data_files:
   - split: train
-    path: "human_enhancers_cohn/train/*.csv.gz"
+    path: human_enhancers_cohn/train/*.csv.gz
   - split: test
-    path: "human_enhancers_cohn/test/*.csv.gz"
+    path: human_enhancers_cohn/test/*.csv.gz
 - config_name: human_enhancers_ensembl
   data_files:
   - split: train
-    path: "human_enhancers_ensembl/train/*.csv.gz"
+    path: human_enhancers_ensembl/train/*.csv.gz
   - split: test
-    path: "human_enhancers_ensembl/test/*.csv.gz"
+    path: human_enhancers_ensembl/test/*.csv.gz
 - config_name: human_ensembl_regulatory
   data_files:
   - split: train
-    path: "human_ensembl_regulatory/train/*.csv.gz"
+    path: human_ensembl_regulatory/train/*.csv.gz
   - split: test
-    path: "human_ensembl_regulatory/test/*.csv.gz"
+    path: human_ensembl_regulatory/test/*.csv.gz
 - config_name: human_nontata_promoters
   data_files:
   - split: train
-    path: "human_nontata_promoters/train/*.csv.gz"
+    path: human_nontata_promoters/train/*.csv.gz
   - split: test
-    path: "human_nontata_promoters/test/*.csv.gz"
+    path: human_nontata_promoters/test/*.csv.gz
 - config_name: human_ocr_ensembl
   data_files:
   - split: train
-    path: "human_ocr_ensembl/train/*.csv.gz"
+    path: human_ocr_ensembl/train/*.csv.gz
   - split: test
-    path: "human_ocr_ensembl/test/*.csv.gz"
+    path: human_ocr_ensembl/test/*.csv.gz
+license: apache-2.0
 ---
+# Genomic Benchmark
+In this repository, we collect benchmarks for classification of genomic sequences. It is shipped as a Python package, together with functions helping to download & manipulate datasets and train NN models. 
+
+## Citing Genomic Benchmarks
+
+If you use Genomic Benchmarks in your research, please cite it as follows.
+
+### Text
+
+GRESOVA, Katarina, et al. Genomic Benchmarks: A Collection of Datasets for Genomic Sequence Classification. bioRxiv, 2022.
+
+### BibTeX
+
+```bib
+@article{gresova2022genomic,
+  title={Genomic Benchmarks: A Collection of Datasets for Genomic Sequence Classification},
+  author={Gresova, Katarina and Martinek, Vlastimil and Cechak, David and Simecek, Petr and Alexiou, Panagiotis},
+  journal={bioRxiv},
+  year={2022},
+  publisher={Cold Spring Harbor Laboratory},
+  url={https://www.biorxiv.org/content/10.1101/2022.06.08.495248}
+}
+```
+
+From the [github repo](https://github.com/ML-Bioinfo-CEITEC/genomic_benchmarks/tree/main):
+
 # Datasets
 
 Each folder contains either one benchmark or a set of benchmarks. See [docs/](../docs/) for code used to create these benchmarks.