def from_transcript(transcript, params):
"""It does workflow for creating sh-miR from transcript
Args:
transcript: name of NCBI transcript
params: dict with optional arguments:
* min_gc -- Minimal "GC" content in strand
default: 40
* max_gc -- Maximal "GC" content in strand
default: 60
* max_offtarget -- Maximal offtarget in strand
default: 10
* mirna_name -- The name of miRNA backbone to use
default: 'all'
* stymulators -- one of "yes", "no", "no_difference"
default: 'no_difference'
Returns:
None
"""
return wait_until_task(
creator("from_transcript_create", transcript,
params=params), lambda task_id, **kwargs: checker(
"from_transcript_check", task_id, **kwargs),
from_transcript_result)
def from_transcript(transcript, params):
"""It does workflow for creating sh-miR from transcript
Args:
transcript: name of NCBI transcript
params: dict with optional arguments:
* min_gc -- Minimal "GC" content in strand
default: 40
* max_gc -- Maximal "GC" content in strand
default: 60
* max_offtarget -- Maximal offtarget in strand
default: 10
* mirna_name -- The name of miRNA backbone to use
default: 'all'
* immuno -- one of "yes", "no", "no_difference"
default: 'no_difference'
Returns:
None
"""
return wait_until_task(
creator("from_transcript_create", transcript, params=params),
lambda task_id, **kwargs: checker("from_transcript_check", task_id, **kwargs),
from_transcript_result,
)
def mfold(sequence):
"""It does all workflow for mfold task
* creates task
* wait until it's done
* gets result(s)
Args:
sequence: Sequence which we would like to fold via mfold
Returns:
None
"""
return wait_until_task(
creator("mfold_create", sequence),
lambda task_id, **kwargs: checker("mfold_check", task_id, **kwargs),
mfold_result)
def from_sirna(sequences):
"""It does workflow for creating sh-miR from siRNA sequence(s)
* creates task
* wait until it's done
* gets result(s)
Args:
sequences: one siRNA strand (active) or two siRNA strands separated by space.
First strand is active, both are in 5-3 orientation.
Returns:
None
"""
return wait_until_task(
creator("from_sirna_create",
sequences), lambda task_id, **kwargs: checker(
"from_sirna_check", task_id, **kwargs), from_sirna_result)
def mfold(sequence):
"""It does all workflow for mfold task
* creates task
* wait until it's done
* gets result(s)
Args:
sequence: Sequence which we would like to fold via mfold
Returns:
None
"""
return wait_until_task(
creator("mfold_create", sequence),
lambda task_id, **kwargs: checker("mfold_check", task_id, **kwargs),
mfold_result,
)
def from_sirna(sequences):
"""It does workflow for creating sh-miR from siRNA sequence(s)
* creates task
* wait until it's done
* gets result(s)
Args:
sequences: one siRNA strand (active) or two siRNA strands separated by space.
First strand is active, both are in 5-3 orientation.
Returns:
None
"""
return wait_until_task(
creator("from_sirna_create", sequences),
lambda task_id, **kwargs: checker("from_sirna_check", task_id, **kwargs),
from_sirna_result,
)