Sequana is a Python framework designed to provide pipelines to analyse Next Generation Sequencing data sets. Sequana provides tools to access the sequence quality but also post-processing analysis such as depth of coverage or variant detection. Latest updates are available on GitHub. Please visit the online documentation for details. As of Aug 2018, we have about 10 different pipelines from variant calling to RNA-seq analysis that are available for developers and users.
Sequana is also an incubator for research and development projects that creates synergies between developers. Examples of projects that were created within the Sequana projects are the Sequanix software: a GUI for snakemake pipelines, published in bioinformatics in 2018.
Another example is the Sequana_coverage tool that is an efficient tool used to detect and characterize genomic regions of interest within genome coverage. It can be used to efficiently detect CNV events. It takes as input BAM or BED files and creates HTML report including MultiQC reports.