Detecting Medium and Large Insertions and Deletions with transIndel.
Methods Mol Biol
; 2493: 67-75, 2022.
Article
en En
| MEDLINE
| ID: mdl-35751809
ABSTRACT
Insertions and deletions (indels) are primarily detected from DNA sequencing (DNA-seq) data, but their transcriptional consequences remain unexplored due to challenges in distinguishing medium- and large-sized indels from RNA splicing events in RNA-seq data. We introduce transIndel, a splice-aware algorithm that parses the chimeric alignments predicted by a short read aligner and reconstructs the mid-sized insertions and large deletions based on the linear alignments of split reads from DNA-seq or RNA-seq data. Here, we describe the method and provide a tutorial on the installation and application of transIndel.
Palabras clave
Texto completo:
1
Banco de datos:
MEDLINE
Asunto principal:
Programas Informáticos
/
Mutación INDEL
Idioma:
En
Año:
2022
Tipo del documento:
Article