cigar2align
Convert unaligned sequences to aligned sequences using signatures in CIGAR format
Syntax
Description
___ = cigar2align(
,
for any outputs, specifies additional options using one or more name-value
arguments. For example, to have the output display gaps in the reference sequence,
use Seqs
,Cigars
,Name,Value
)Alignment = cigar2align(Seqs,Cigars,GapsInRef=true)
.
Examples
Input Arguments
Output Arguments
Algorithms
When cigar2align
reconstructs the alignment, it does not display
hard clipped positions (H) or soft clipped positions (S). Also, it does not consider
soft clipped positions as start positions for aligned sequences.
Alternative Functionality
If your CIGAR information is captured in the Signature
property of
a BioMap
object, you can use the getAlignment
method to construct the alignment.
Version History
Introduced in R2010b
See Also
align2cigar
| seqalignviewer
| getBaseCoverage
| getCompactAlignment
| getAlignment
| BioMap