summarise.merged.read: Produce a one-row summary of a merged read

In mammerlin/sangeranalyseR: sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R

Description

Produce a one-row summary of a merged read

Usage

summarise.merged.read(merged.read)

Arguments

merged.read

a merged.read object produced by the merge.reads() function

Value

A numeric vector including (note that insertions, deletions, and stop codons will only be called if the read was merged with a reference amino acid sequence):

1. consensus.len: the length of the consensus sequence
   

2. n.reads: the number of reads used to build the consensus
   

3. distance.min: the minimum distance between two reads
   

4. distance.max: the maximum distance between two reads
   

5. distance.med: the median distance between pairs of reads
   

6. readlen.min: the length of the smallest read
   

7. readlen.max: the length of the longest read
   

8. readlen.med: the median of all read lengths
   

9. insertions.min: the smallest number of insertions inferred in a read
   

10. insertions.max: the larges number of insertions inferred in a read
    

11. insertions.med: the median number of insertions inferred in a read
    

12. deletions.min: the smallest number of deletions inferred in a read
    

13. deletions.max: the larges number of deletions inferred in a read
    

14. deletions.med: the median number of deletions inferred in a read
    

15. stops.min: the smallest number of stop codons inferred in a read
    

16. stops.max: the larges number of stop codons inferred in a read
    

17. stops.med: the median number of stop codons inferred in a read
    

mammerlin/sangeranalyseR documentation built on May 13, 2019, 1:08 p.m.