Detect and evaluate tandem repeats in genomic sequence data.
TRAL is a highly modularized, flexible sequence tandem repeats annotation Python2/3 library.
- Large scale annotation of tandem repeats with de novo detectors, and sequence profile models
- Statistical significance testing, overlap detection, and filtering of annotations
- Refinement of tandem repeat annotations with circular profile hidden Markov models
- User-defined output formats
The source code is documented on GitHub IO.
$ pip install tral
See also more extensive Installation instructions.
Some of TRAL’s functions depend on external software (Installation instructions for dependencies). This includes creation of sequence profile hidden Markov models, alignment of tandem repeat units, and de novo repeat detection.