Detect and evaluate tandem repeats in genomic sequence data.
Project description
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.
Version
1.0.0
Installation
TRAL is available on Pypi and can be installed with pip for Python>=3.2:
$ pip install tralSee also more extensive Installation instructions.
License
GPL-2.0
Dependencies
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.
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