TRviz: a Python library for decomposing and visualizing tandem repeat sequences

SUMMARY: TRviz is an open-source Python library for decomposing, encoding, aligning and visualizing tandem repeat (TR) sequences. TRviz takes a collection of alleles (TR containing sequences) and one or more motifs as input and generates a plot showing the motif composition of the TR sequences. AVAI...

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Detalles Bibliográficos
Autores principales: Park, Jonghun, Kaufman, Eli, Valdmanis, Paul N, Bafna, Vineet
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Application Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10166586/
https://www.ncbi.nlm.nih.gov/pubmed/37168281
http://dx.doi.org/10.1093/bioadv/vbad058
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author Park, Jonghun
Kaufman, Eli
Valdmanis, Paul N
Bafna, Vineet
author_facet Park, Jonghun
Kaufman, Eli
Valdmanis, Paul N
Bafna, Vineet
author_sort Park, Jonghun
collection PubMed
description SUMMARY: TRviz is an open-source Python library for decomposing, encoding, aligning and visualizing tandem repeat (TR) sequences. TRviz takes a collection of alleles (TR containing sequences) and one or more motifs as input and generates a plot showing the motif composition of the TR sequences. AVAILABILITY AND IMPLEMENTATION: TRviz is an open-source Python library and freely available at https://github.com/Jong-hun-Park/trviz. Detailed documentation is available at https://trviz.readthedocs.io. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics Advances online.
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spelling pubmed-101665862023-05-09 TRviz: a Python library for decomposing and visualizing tandem repeat sequences Park, Jonghun Kaufman, Eli Valdmanis, Paul N Bafna, Vineet Bioinform Adv Application Note SUMMARY: TRviz is an open-source Python library for decomposing, encoding, aligning and visualizing tandem repeat (TR) sequences. TRviz takes a collection of alleles (TR containing sequences) and one or more motifs as input and generates a plot showing the motif composition of the TR sequences. AVAILABILITY AND IMPLEMENTATION: TRviz is an open-source Python library and freely available at https://github.com/Jong-hun-Park/trviz. Detailed documentation is available at https://trviz.readthedocs.io. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics Advances online. Oxford University Press 2023-04-26 /pmc/articles/PMC10166586/ /pubmed/37168281 http://dx.doi.org/10.1093/bioadv/vbad058 Text en © The Author(s) 2023. Published by Oxford University Press. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Application Note
Park, Jonghun
Kaufman, Eli
Valdmanis, Paul N
Bafna, Vineet
TRviz: a Python library for decomposing and visualizing tandem repeat sequences
title TRviz: a Python library for decomposing and visualizing tandem repeat sequences
title_full TRviz: a Python library for decomposing and visualizing tandem repeat sequences
title_fullStr TRviz: a Python library for decomposing and visualizing tandem repeat sequences
title_full_unstemmed TRviz: a Python library for decomposing and visualizing tandem repeat sequences
title_short TRviz: a Python library for decomposing and visualizing tandem repeat sequences
title_sort trviz: a python library for decomposing and visualizing tandem repeat sequences
topic Application Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10166586/
https://www.ncbi.nlm.nih.gov/pubmed/37168281
http://dx.doi.org/10.1093/bioadv/vbad058
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