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Virus transcript detection and quantification using normal human RNAseq. VIRTUS is the first tool to detect viral transcripts considering their splicing event rather than the viral genome copy number. VIRTUS can be applied to both bulk RNAseq and single-cell RNAseq. The virus reference covers 763 viruses including SARS-CoV-2 (cause of COVID-19). The workflow is implemented by Common Workflow Language and Rabix. You can specify each parameter individually or give yaml or json file which describes all the parameter information. In detail, check the CWL User Guide out.
Yoshiaki Yasumizu (yyasumizu@ifrec.osaka-u.ac.jp)
VIRTUS: a pipeline for comprehensive virus analysis from conventional RNA-seq data Yoshiaki Yasumizu, Atsushi Hara, Shimon Sakaguchi, Naganari Ohkura. bioRxiv 2020.05.08.085308; doi: https://doi.org/10.1101/2020.05.08.085308
Kozo Nishida : CI config and many other supports.
This software is freely available for academic users. Usage for commercial purposes is not allowed. Please refer to the LICENCE page.
