Sequence interval

In [1]:

import sys
sys.path.insert(0, '../../')
import picea
from picea import SequenceInterval
picea.__version__

import sys sys.path.insert(0, '../../') import picea from picea import SequenceInterval picea.__version__

Out[1]:

'0.0.31'

In [2]:

interval = SequenceInterval.from_gff_line('ctg123\t.\tgene\t1000\t9000\t.\t+\t.\tID=gene00001;Name=EDEN')
interval

interval = SequenceInterval.from_gff_line('ctg123\t.\tgene\t1000\t9000\t.\t+\t.\tID=gene00001;Name=EDEN') interval

Out[2]:

<SequenceInterval type=gene ID=gene00001 loc=ctg123..1000..9000..+ at 0x7ff6084241c0>

In [3]:

interval.to_gff_line()

interval.to_gff_line()

Out[3]:

'ctg123\t.\tgene\t1000\t9000\t.\t+\t.\tID=gene00001;Name=EDEN'

In [4]:

interval['parent']

interval['parent']

---------------------------------------------------------------------------
KeyError                                  Traceback (most recent call last)
Cell In[4], line 1
----> 1 interval['parent']

File ~/work/picea/picea/docs/examples/../../picea/dag.py:36, in DAGElement.__getitem__(self, key)
     35 def __getitem__(self, key):
---> 36     return self.__dict__[key]

KeyError: 'parent'