krishna

type Krishna ¶

type Krishna struct {
	// contains filtered or unexported fields
}

Krishna is a pure Go implementation of Edgar and Myers PALS tool. This version of krishna is modified from its original form and only computes alignment for a sequence against itself.

func New(seqPath, tmpDir string, params Params) (*Krishna, error)

func (k *Krishna) CleanUp()

func (k *Krishna) Run(writer *pals.Writer) error

type Params ¶

type Params struct {
	TmpChunkSize int
	MinHitLen    int
	MinHitId     float64
	TubeOffset   int
	AlignConc    bool
	TmpConc      bool
}