...
eresearchqut/VirReport is a bioinformatics pipeline based upon the scientific workflow manager Nextflow. It was designed to help phytosanitary diagnostics of viruses and viroid pathogens in quarantine facilities. It takes small RNA-Seq fastq files as input. These can either be in raw format (currently only samples specifically prepared with the QIAGEN QIAseq miRNA library kit can be processed this way) or quality-filtered.
The pipeline can either perform For target identification, VirReport performs an hybrid de novo assembly approach to build contigs that are then annotated using blast homology searches against either a virus database or/and a local copy of NCBI nr and nt databases.
...
◦ under the QC_report folder, read size distribution pdf file and read RNA source pdf file are created. The folder also includes a run_qc_report text file
...
01_VirReport folder content:
...