- Unique identifier:
- Software type:
- Restrictions to use:
- Output data:
- Assigns a score to each node of the taxonomy based on read frequency, and can output this as a taxonomy report suitable for cluster analysis or as a taxonomy map (TaxMap). IMSA can also output the specific sequence reads assigned to a taxon of interest for downstream analysis.
- Programming languages:
- Computer skills:
- Integrated Metagenomic Sequence Analysis
- Command line interface
- Input data:
- Takes input sequence from high throughput datasets and utilizes a user-defined host database to filter out host sequence.
- Operating system:
- GNU General Public License version 3.0
- Aleksey Porollo <>
No open topic.
(Cox et al., 2017)
A fast and robust protocol for metataxonomic analysis using RNAseq data.
PMID: 28103917 DOI: 10.1186/s40168-016-0219-5
(Dimon et al., 2013)
IMSA: integrated metagenomic sequence analysis for identification of exogenous reads in a host genomic background.
PMID: 23717627 DOI: 10.1371/journal.pone.0064546
Department of Dermatology, University of California San Francisco, San Francisco, CA, USA; Leeds Institute of Molecular Medicine, St James’s University Hospital, Leeds, UK; Department of Electrical Engineering and Computing Systems, University of Cincinnati, Cincinnati, OH, USA; The Center for Autoimmune Genomics and Etiology, Cincinnati Children’s Hospital Medical Center, Cincinnati, OH, USA; Division of Biomedical Informatics, Cincinnati Children’s Hospital Medical Center, Cincinnati, OH, USA; Division of Infectious Diseases, Cincinnati Children’s Hospital Medical Center, Cincinnati, OH, USA
This work was supported by the National Institutes of Health [5R01HL119190].
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