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ModelZoo
Higashi_pytorch
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8027d02e
"vscode:/vscode.git/clone" did not exist on "dd4cd081db39d6769060bb48d0137b832789f015"
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8027d02e
authored
Oct 16, 2024
by
wangsen
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8027d02e
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@@ -68,7 +68,7 @@ conda activate higashi
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@@ -68,7 +68,7 @@ conda activate higashi
Tips:以上dtk驱动、torch等工具版本需要严格一一对应。
Tips:以上dtk驱动、torch等工具版本需要严格一一对应。
3.
其它依赖库参照requirements.txt安装:
3.
其它依赖库参照requirements.txt安装:
```
```
python setup.py install
python setup.py install
pip install -r requirements.txt -i http://mirrors.aliyun.com/pypi/simple/ --trusted-host mirrors.aliyun.com
pip install -r requirements.txt -i http://mirrors.aliyun.com/pypi/simple/ --trusted-host mirrors.aliyun.com
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@@ -79,11 +79,9 @@ pip install -r requirements.txt -i http://mirrors.aliyun.com/pypi/simple/ --trus
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@@ -79,11 +79,9 @@ pip install -r requirements.txt -i http://mirrors.aliyun.com/pypi/simple/ --trus
```
```
mkdir -p /work/magroup/ruochiz/Data/scHiC_collection/ramani
mkdir -p /work/magroup/ruochiz/Data/scHiC_collection/ramani
mkdir -p /work/magroup/ruochiz/Higashi/Temp/ramani
mkdir -p /work/magroup/ruochiz/Higashi/Temp/ramani
wget -P /work/magroup/ruochiz/Higashi/ https://mirror.ghproxy.com/https://raw.githubusercontent.com/hanfang/Topsorter/refs/heads/master/data/hg19.chrom.sizes.txt
wget -P /work/magroup/ruochiz/Higashi/ https://mirror.ghproxy.com/https://raw.githubusercontent.com/hanfang/Topsorter/refs/heads/master/data/hg19.chrom.sizes.txt
wget -P /work/magroup/ruochiz/Higashi/ https://hgdownload.cse.ucsc.edu/goldenpath/hg19/database/cytoBand.txt.gz
wget -P /work/magroup/ruochiz/Higashi/ https://hgdownload.cse.ucsc.edu/goldenpath/hg19/database/cytoBand.txt.gz
wget -p /work/magroup/ruochiz/Data/scHiC_collection/ramani https://drive.google.com/drive/folders/1S0KOMAj60MxQP6mgPV1OKjn_J-lVpzKM?usp=sharing
wget -p /work/magroup/ruochiz/Data/scHiC_collection/ramani https://drive.google.com/drive/folders/1S0KOMAj60MxQP6mgPV1OKjn_J-lVpzKM?usp=sharing
```
```
# 测试
# 测试
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@@ -111,17 +109,14 @@ ai for science
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@@ -111,17 +109,14 @@ ai for science
# 源码仓库及问题反馈
# 源码仓库及问题反馈
```
http://developer.sourcefind.cn/codes/modelzoo/higashi.git
http://developer.sourcefind.cn/codes/modelzoo/higashi.git
```
# 参考资料
# 参考资料
```
https://github.com/ma-compbio/Higashi/
```
https://github.com/ma-compbio/Higashi/
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