To cite IDseq you can cite our paper in GigaScience:
- K Katrina L., et al.: IDseq—an open source cloud-based pipeline and analysis service for metagenomic pathogen detection and monitoring. GigaScience 9.10 (2020): giaa111
as well as these two papers that have details about the product and pipeline:
- S Saha et al.: Unbiased metagenomic sequencing for pediatric meningitis in Bangladesh reveals neuroinvasive Chikungunya virus outbreak and other unrealized pathogens. bioRxiv, 2019. doi.org/10.1101/579532
- A Ramesh et al.: Metagenomic next-generation sequencing of samples from pediatric febrile illness in Tororo, Uganda. PLOS ONE, 2019. doi.org/10.1371/journal.pone.0218318
You can also reference our open-source github repo: https://github.com/chanzuckerberg/idseq-workflows
We love to hear if you’ve used IDseq in your analysis. Feel free to reach out to us if you have questions or feedback.