SCATA - Sequence Clustering and Analysis of Tagged Amplicons

SCATA provids an analysis framework for the analysis of sequenced tagged amplicons, typically derived from high throughput sequencing of microbial communities. It is optimised for target sequences which cannot readily be aligned across wide phylogenies, e.g. the ITS region. For multiple alignable target sequences, such as 16S rRNA, we recommend the use of pipelines optimised for such data.

Please note that the Scata service is offered freely to the non-commercial scientific community, and as such is run on otherwise unused computer time. This implies that at times, analyses will take longer (up to several days) to finish depending on other requirments of other projects for computational resources.



We provide SCATA as a free service to the scientific community. Please make sure to download your results when done, as we cannot take any long-term responsibility for data storage (datasets are large and use hard disk real estate!). We have tested the analysis pipeline throroughly and use it regularly for our own projects. However, we cannot guarantee that it is error-free; the final responsibility for ensuring that your results are correct rest with you.

We make no warranty (expressed, implied, or statutory) regarding any data stored whithin this service or any results obtained through using it, including without limitation implied warranties of merchantability, fitness for use, or fitness for a particular purpose.

Citing SCATA

A paper describing SCATA is now submitted. The current citation if you use this service is:

Mikael Brandström Durling, Karina E Clemmensen, Jan Stenlid and Björn
Lindahl (2011): SCATA - An efficient bioinformatic pipeline for species identification and quantification after high-throughput sequencing of tagged amplicons (submitted).

This service is sponsored by the Department of Forest Mycology and Plant Pathology at the Swedish University of Agricultural Sciences. Please direct any questions regarding the system to Mikael Brandström Durling using the email address mikael::durling@slu:;se (replacing the colons with dots).