Perform splitting of Oxford Nanopore sequencing data in a fail and pass dataset.
Project description
Perform splitting of Oxford Nanopore sequencing data in a fail and pass dataset using a user defined quality cutoff. The script can read compressed input and will write to gzip compressed files.
INSTALLATION
pip install NanoSplit
USAGE
NanoSplit [-h] [-q QUALITY] [--outdir OUTDIR] fastqfile Required arguments: fastqfile Fastq file to split, can be gz compressed. Optional arguments: -h, --help show this help message and exit -q QUALITY, --quality QUALITY Splitting on this average read quality score Default: 12 --outdir OUTDIR Specify directory in which output has to be created.
EXAMPLES
NanoSplit reads.fastq.gz NanoSplit -q 6 reads.fastq.gz NanoSplit -q 10 --outdir /home/user/datasetsplit/ reads.fastq
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