Quality control tools for long read sequencing data aiming to replicate some of the plots made by fastQC. This is an immature tool and I welcome all contributions.
Creates dynamic plots using bokeh. For an example see here
pip install nanoQCor
conda install -c bioconda nanoqc
nanoQC [-h] [-v] [-o OUTDIR] fastq
positional arguments:
fastq Reads data in fastq.gz format.
optional arguments:
-h, --help show this help message and exit
-v, --version Print version and exit.
-o, --outdir OUTDIR Specify directory in which output has to be created.
-l, --minlen int Minimum length of reads to be included in the plots
This also controls the length plotted in the graphs
from the beginning and end of reads (length plotted = minlen / 2)
If you use this tool, please consider citing our publication.
Thanks to:
- Jasper Ouwerkerk (JasperO98) for improving how reads are selected (v0.8.0)