Segment a single indel using Rcpp interface

This function provides direct C++ interface for indel segmentation without calling an external binary via system2.

Usage

segment_simple_cpp(ins_or_del, string, context)

Arguments

ins_or_del

Character indicating insertion ("i") or deletion ("d")

string

A single indel sequence to segment (character scalar)

context

A single flanking context sequence (character scalar)

Value

A list with the following elements:

unit

Repeat unit sequence (character)

unit_length

Unit length (integer)

internal_rep

Internal repeat region (character)

internal_reps

Internal repeat count (integer)

spacer

Spacer sequence (character)

spacer_length

Spacer length (integer)

prime3_rep

3' flanking repeat region (character)

prime3_reps

3' flanking repeat count (integer)

original_reps

Original repeat count (integer)