bed

package

v0.1.4 Latest Latest Go to latest Published: Sep 10, 2021 License: MIT Imports: 5 Imported by: 0

Details

Valid go.mod file
Redistributable license
Tagged version
Stable version
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Repository

github.com/fluhus/biostuff

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Documentation ¶

Overview ¶

Package bed handles BED I/O.

Format ¶

This package uses the format described in: https://en.wikipedia.org/wiki/BED_(file_format)

Index ¶

Constants
type BED
type Reader
- func NewReader(r io.Reader) *Reader
- func (r *Reader) Next() (*BED, int, error)

Constants ¶

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const (
	PlusStrand  = "+"
	MinusStrand = "-"
	NoStrand    = "."
)

Valid values for the strand field.

Variables ¶

This section is empty.

Functions ¶

This section is empty.

Types ¶

type BED ¶ added in v0.1.2

type BED struct {
	Chrom       string
	ChromStart  int // 0-based
	ChromEnd    int // 0-based exclusive
	Name        string
	Score       int
	Strand      string
	ThickStart  int
	ThickEnd    int
	ItemRGB     [3]byte
	BlockCount  int
	BlockSizes  []int // Length should match BlockCount
	BlockStarts []int // Length should match BlockCount
}

BED is a single line in a BED file.

type Reader ¶ added in v0.1.3

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

A Reader reads and parses BED lines.

func NewReader ¶ added in v0.1.3

func NewReader(r io.Reader) *Reader

NewReader returns a new BED reader that reads from r.

func (*Reader) Next ¶ added in v0.1.3

func (r *Reader) Next() (*BED, int, error)

Next returns the next BED line, and the number of fields that were found. That number of fields will be populated in the result BED, by order of appearance. The rest will have zero values.

Source Files ¶

View all Source files

bed.go

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