Skip to content

tiny-count: new selector for filtering alignments by edit distance #296

@AlexTate

Description

@AlexTate

In the SAM specification, NM:i: tags indicate an alignment's edit distance to the reference (if mismatches are allowed). A new selector, Mismatches, will be added to the Features Sheet so that selection rules can be defined to filter reads by this value in Stage 3. It will support single values, lists, or ranges just like the Length selector.

The NM:i: tag is optional, and while it is reported by bowtie it isn't reported by all alignment tools. If it is missing then the edit distance will have to be calculated by parsing the CIGAR string.

Metadata

Metadata

Assignees

Labels

No labels
No labels

Type

No type

Projects

No projects

Milestone

No milestone

Relationships

None yet

Development

No branches or pull requests

Issue actions