Please use this identifier to cite or link to this item: https://doi.org/10.21256/zhaw-22764
Publication type: Article in scientific journal
Type of review: Peer review (publication)
Title: TRAL 2.0 : tandem repeat detection with circular profile hidden Markov models and evolutionary aligner
Authors: Delucchi, Matteo
Näf, Paulina
Bliven, Spencer
Anisimova, Maria
et. al: No
DOI: 10.3389/fbinf.2021.691865
10.21256/zhaw-22764
Published in: Frontiers in Bioinformatics
Volume(Issue): 1
Issue: 691865
Issue Date: 25-Jun-2021
Publisher / Ed. Institution: Frontiers Research Foundation
ISSN: 2673-7647
Language: English
Subjects: Bioinformatics; Profile hidden markov models; Computational biology; Genome annotation; Protein sequence analysis; Tandem repeats
Subject (DDC): 004: Computer science
572: Biochemistry
Abstract: The Tandem Repeat Annotation Library (TRAL) focuses on analyzing tandem repeat units in genomic sequences. TRAL can integrate and harmonize tandem repeat annotations from a large number of external tools, and provides a statistical model for evaluating and filtering the detected repeats. TRAL version 2.0 includes new features such as a module for identifying repeats from circular profile hidden Markov models, a new repeat alignment method based on the progressive Poisson Indel Process, an improved installation procedure and a docker container. TRAL is an open-source Python 3 library and is available, together with documentation and tutorials viavital-it.ch/software/tral.
URI: https://digitalcollection.zhaw.ch/handle/11475/22764
Fulltext version: Published version
License (according to publishing contract): CC BY 4.0: Attribution 4.0 International
Departement: Life Sciences and Facility Management
Organisational Unit: Institute of Computational Life Sciences (ICLS)
Published as part of the ZHAW project: REFRACT – Repeat protein Function, Refinement, Annotation and Classification of Topologies
Trans-omic approach to colorectal cancer: an integrative computational and clinical perspective
Frequentist estimation of the evolutionary history of sequences with substitutions and indels
Appears in collections:Publikationen Life Sciences und Facility Management

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