pyscnet.BuildNet¶
pyscnet.BuildNet.gne_dockercaller¶
Created on Fri May 31 12:51:34 2019
@author: mwu
- pyscnet.BuildNet.gne_dockercaller.rundocker(gnetdata, method, cell=None, feature=None, **kwargs)[source]¶
Call GRN methods via docker.¶
- param gnetdata:
Gnetdata object, default None.
- param method:
str, default None. methods: [GENIE3, GRNBOOST2, PIDC, CORR]
- param cell:
list, default None. a list of cell names
- param feature:
list, default None. a list of gene names
- param cell_clusterid:
str, default None. cell with cell_clusterid will be selected
- param select_by:
str, default None. key of filtering cells
- param Mms_TF:
list, default None. a list of transcription factor names
- param directed:
bool, default True.
- param kwargs:
additional parameters passed to scnode2vec()
- return:
Gnetdata object with links saved in NetAttrs