Location

Location

class gb_io.Location

A base location for a Feature.

This class cannot be instantiated directly, and should not be derived to avoid breakage in the Rust code. It can however be used for type annotations where any concrete Location subclass can be given.

Between

class gb_io.Between(start, end)

A location for a Feature located between two consecutive positions.

end

The end of the position interval.

Type:

int

start

The start of the position interval.

Type:

int

Bond

class gb_io.Bond(locations)

A location for a Feature corresponding to a bond between locations.

Complement

class gb_io.Complement(location)

A location for a Feature on the opposite strand of a given Location.

location

The location on the complement strand.

Type:

Location

External

class gb_io.External(accession, location=None)

A location for a Feature located in an external record.

accession

The accession of the external record where the feature is located.

Type:

str

location

The location of the feature in the external record.

Type:

Location or None

Join

class gb_io.Join(locations)

A location for a Feature consisting in joined sequence spans.

locations

The locations part of the joint location.

Type:

list of Location

OneOf

class gb_io.OneOf(locations)

A location for a Feature located at one of the given locations.

locations

The locations at one of which this feature is located.

Type:

list of Location

Order

class gb_io.Order(locations)

A location for a Feature over disjoint locations in the given order.

locations

The locations part of the ordered location.

Type:

list of Location

Range

class gb_io.Range(start, end, before=False, after=False)

A location for a Feature spanning over a range of consecutive positions.

The additional before and after flags can be set to indicate the feature spans before its starting index and/or after its ending index. For instance, a feature location of <1..206 can be created with Range(1, 206, before=True).

after

Whether the range extends after the given end index.

Type:

bool

before

Whether the range start before the given start index.

Type:

bool

end

The end of the range of positions.

Type:

int

start

The start of the range of positions.

Type:

int