dentist.common.insertions

Members

Aliases

Insertion

alias Insertion = OutputScaffold.Edge

This characterizes an insertion.

OutputScaffold

alias OutputScaffold = Scaffold!InsertionInfo

This is used to collect all sub-sequences of the output.

Functions

fixContigCropping

OutputScaffold fixContigCropping(OutputScaffold scaffold)

Remove contig cropping where no new sequence is to be inserted.

isOutputGap

bool isOutputGap(in Insertion insertion)

Returns true iff a sequence of ns should be written.

Structs

InsertionInfo

struct InsertionInfo

This characterizes an insertion.

SpliceSite

struct SpliceSite

Information about the point where the two sequences should be spliced.

• alignments
• binio
• insertions
• scaffold

• ReadInterval
• ReadPoint
• ReadRegion
• ReferenceInterval
• ReferencePoint
• ReferenceRegion

• DentistException

• to

• isTesting

• OutputCoordinate

• testingOnly