DigestiFlow - reproducible demultiplexing for the single cell era
- Published
- Accepted
- Subject Areas
- Bioinformatics, Computational Science
- Keywords
- next-generation sequencing, demultiplexing, scientific data management
- Copyright
- © 2019 Holtgrewe et al.
- Licence
- This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ Preprints) and either DOI or URL of the article must be cited.
- Cite this article
- 2019. DigestiFlow - reproducible demultiplexing for the single cell era. PeerJ Preprints 7:e27717v3 https://doi.org/10.7287/peerj.preprints.27717v3
Abstract
Summary. Managing raw sequencing data and conversion into sequences (demultiplexing) remains a challenging topic for groups running sequencing devices. They face many challenges in such efforts and solutions range from manual management of spreadsheets to very complex and customized LIMS systems handling much more than just sequencing raw data. In this manuscript, we describe the software package DigestiFlow that focuses on the management of Illumina flow cell sample sheets and raw data. Namely, it allows for automated extraction of flow cell raw data information, management of sample sheets, and the automated (and thus reproducible) demultiplexing of Illumina base calls data.
Availability and Implementation. The software is available under the MIT license at https://github.com/bihealth/digestiflow-server. The client and demux software components are available via Bioconda.
Author Comment
Rewrote paper for resubmission.
Supplemental Information
Digestiflow Server Documentation
The documentation of Digestiflow at the time of publication. An up-to-date version is available online. The link can be found on the project page on GitHub.