checkFrame: this function finds correct frame sequences of intersection...

In oacar/synal: Synteny Alignment and Analysis for Saccharomyces sensu stricto

Description

this function finds correct frame sequences of intersection and union of two Iranges objects

Usage

checkFrame(dna, map, unionStart, unionEnd, intersectStart, intersectEnd,
  start)

Arguments

dna	ungapped sequence
map	mapped list of original sequence–>gapped alignment created by map_alignment_sequence
unionStart	union range start position
unionEnd	union range last position
intersectStart	intersection range start position
intersectEnd	intersection range end position
start	start of ORF of interest, to compare with unionStart and intersectStart values

Value

list of correct frame intersection and union dna sequences taken as subsequence of dna

oacar/synal documentation built on Feb. 22, 2020, 1:42 p.m.