tracts.tract

Classes

Tract(start, end, label[, bpstart, bpend])

A tract is the lower-level object of interest.
class tracts.tract.Tract(start, end, label, bpstart=None, bpend=None)

Bases: object

A tract is the lower-level object of interest. All the remaining structure is built on top of lists of tracts. In essence, a tract is simply a labelled interval.

__init__(start, end, label, bpstart=None, bpend=None)

Constructor.

Parameters:

  • start (float) – The starting point of this tract, in Morgans.

  • end (float)) – The ending point of this tract, in Morgans.

  • label (string) – A meaningful identifier for this tract. Generally this marks the ancestry associated with this tract.

  • bpstart (int, default: None) – The starting point of this tract, in basepairs. Since the rest of Tracts uses Morgans throughout, specifying this parameter is not necessary for Tracts to function correctly.

  • bpend (int, default: None) – The ending point of this tract, in basepairs.

copy()

Constructs a new tract whose properties are the same as this one.

get_label()

Gets the label of the tract.

is_equal(other)

Check if two tracts are equal, in terms of their start, end, and label.

len()

Gets the length of the tract (in Morgans)