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Merge branch 'main' of github.com:ygidtu/trackplot
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README.md

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@@ -71,28 +71,28 @@ The trackplot is written in Python, and user could install it in a variety of wa
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2. using docker image
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```bash
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docker pull ygidtu/sashimi
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docker run --rm ygidtu/sashimi --help
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docker pull ygidtu/trackplot
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docker run --rm ygidtu/trackplot --help
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# or build docker image from source
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git clone https://github.com/ygidtu/trackplot sashimi
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cd sashimi
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git clone https://github.com/ygidtu/trackplot trackplot
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cd trackplot
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docker build -t ygidtu/docker .
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docker run --rm ygidtu/sashimi --help
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docker run --rm ygidtu/trackplot --help
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```
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3. install from source code
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```bash
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git clone https://github.com/ygidtu/trackplot sashimi
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cd sashimi
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git clone https://github.com/ygidtu/trackplot trackplot
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cd trackplot
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pip install -r requirements.txt
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python setup.py install
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# optional, enable bigWig, bigBed and hicMatrix support
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pip install pybigwig hicmatrix
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sashimipy --help
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trackplot --help
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# or
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python main.py --help
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```
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# conda install -c bioconda -c conda-forge trackplot
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# or install trackplot into an isolated environments
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conda create -n sashimi -c bioconda -c conda-forge trackplot
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conda create -n trackplot -c bioconda -c conda-forge trackplot
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# or install latest trackplot
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git clone https://github.com/ygidtu/trackplot.git sashimi
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cd sashimi
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conda create -n sashimi -f environment.yaml
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git clone https://github.com/ygidtu/trackplot.git trackplot
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cd trackplot
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conda create -n trackplot -f environment.yaml
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```
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5. for `pipenv` or `poetry` users
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Install trackplot before set up the web server
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```bash
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git clone https://github.com/ygidtu/trackplot sashimi
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cd sashimi/web
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git clone https://github.com/ygidtu/trackplot trackplot
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cd trackplot/web
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# build the frontend static files
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npm install -g vue-cli vite && npm install
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## Example
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The `example` folder is downloaded from [here.](https://github.com/ygidtu/trackplot/archive/refs/heads/main.zip)
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And a more detailed tutorial could be found at [here.](https://sashimi.readthedocs.io/en/latest/)
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And a more detailed tutorial could be found at [here.](https://trackplot.readthedocs.io/en/latest/)
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```bash
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