AmplificationTimeR: an R package for timing sequential amplification events.
Bioinformatics
; 40(6)2024 Jun 03.
Article
en En
| MEDLINE
| ID: mdl-38656989
ABSTRACT
MOTIVATION Few methods exist for timing individual amplification events in regions of focal amplification. Current methods are also limited in the copy number states that they are able to time. Here we introduce AmplificationTimeR, a method for timing higher level copy number gains and inferring the most parsimonious order of events for regions that have undergone both single gains and whole genome duplication. Our method is an extension of established approaches for timing genomic gains. RESULTS:
We can time more copy number states, and in states covered by other methods our results are comparable to previously published methods. AVAILABILITY AND IMPLEMENTATION AmplificationTimer is freely available as an R package hosted at https//github.com/Wedge-lab/AmplificationTimeR.
Texto completo:
1
Colección:
01-internacional
Base de datos:
MEDLINE
Asunto principal:
Programas Informáticos
Límite:
Humans
Idioma:
En
Revista:
Bioinformatics
Asunto de la revista:
INFORMATICA MEDICA
Año:
2024
Tipo del documento:
Article
País de afiliación:
Reino Unido