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HattCI specifications


Unique identifier OMICS_12605
Name HattCI
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C
Parallelization OpenMP
Computer skills Advanced
Stability Stable
Maintained Yes




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  • person_outline Maria Pereira <>

Publication for HattCI

HattCI citation


Discovery of the fourth mobile sulfonamide resistance gene

PMCID: 5732528
PMID: 29246178
DOI: 10.1186/s40168-017-0379-y

[…] with identity between 60 and 95% and with coverage greater than 65% as “putative novel resistance genes.” the gene cassettes with known function were clustered to remove redundancy using cd-hit. hattci was used to identify attc sites in the lr []., the abundance of mobile sulfonamide resistance genes (sul1, sul2, sul3, and sul4) was quantified in 6489 metagenomic datasets as follows. first, […]

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HattCI institution(s)
Department of Mathematical Sciences, Chalmers University of Technology and University of Gothenburg, Gothenburg, Sweden; Centre for Antibiotic Resistance Research (CARe) at University of Gothenburg, Gothenburg, Sweden
HattCI funding source(s)
This research was funded by the Swedish Research Council (VR), the Chalmers Life Science Area of Advance, and the Wallenberg Foundation.

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