Metadata-Version: 2.1
Name: bcl2fq-local
Version: 0.1.5
Summary: Bcl2fastq wrapper
Home-page: https://github.com/seahurt/bcl2fq-local
Author: Wang Jianghao
Author-email: haozi.vv@gmail.com
License: MIT
Platform: CentOS 7.0+
Classifier: Development Status :: 4 - Beta
Classifier: Environment :: Console
Classifier: Intended Audience :: Developers
Classifier: Intended Audience :: System Administrators
Classifier: Operating System :: POSIX :: Linux
Classifier: License :: OSI Approved :: MIT License
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3
Description-Content-Type: text/markdown
Requires-Dist: xmltodict

# bcl2fq-local

A bcl2fastq wrapper

# Install
```bash
pip install bcl2fq-local
```
or 

```bash
git clone URL
cd bcl2fq-local
python setup.py install

```

# Usage
```text
usage:  bcl2fq-local -i <seq_dir> -o <ou_dir>

optional arguments:
    --sample-sheet Path  Using custom sample sheet file
    --mismatch N         Mismatch for barcode, default: 1
    --process N          Process number for demultiplexing and processing
    --io-process N       Process number for reading and writing
    --binpath   Path     Bcl2fastq binary file path
    --dry-run            Only print the cmd without running it
    --mask String        Use self defined mask, instead of 
    --mask-reads         Mask last few base of reads, default is: 0,0
    --mask-index         Mask last few base of index, default is: 0,0
    --version            Show  version info
```



