README.md

# 1. 从GitHub下载安装CIRI-deep环境
```
git clone https://github.com/gyjames/CIRIdeep.git

```
# 安装环境

```
conda create -n  CIRIdeep  python=3.7
source activate CIRIdeep
pip install tensorflow-1.15.1+git06e2e8aa.dtk2404-cp37-cp37m-linux_x86_64.whl
pip install -r requirements.txt
pip install 'h5py<3.0.0' 
pip install protobuf==3.20.1  -i https://pypi.tuna.tsinghua.edu.cn/simple 

```


# 测试

## 用CIRI-deep进行预测
```
python CIRIdeep.py predict -geneExp_absmax ./demo/RBPmax_totalRNA.tsv -seqFeature ./demo/cisfeature.tsv -splicing_max ./demo/splicingamount_max.tsv -predict_list ./demo/predict_list.txt -model_path ./models/CIRIdeep.h5 -outdir ./outdir -RBP_dir ./demo/RBPexp_total -splicing_dir ./demo/splicingamount

```
## 用CIRI-deepA进行预测

```
python CIRIdeep.py predict -geneExp_absmax ./demo/RBPmax_polyA.tsv -seqFeature ./demo/cisfeature.tsv -predict_list ./demo/predict_list.txt -model_path ./models/CIRIdeepA.h5 -outdir ./outdir -RBP_dir ./demo/RBPexp_polyA --CIRIdeepA
```