Bcl2fastq wrapper
Project description
bcl2fq-local
A bcl2fastq wrapper
Install
pip install bcl2fq-local
or
git clone URL
cd bcl2fq-local
python setup.py install
Usage
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
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