Closed Biomamba closed 11 months ago
Co-occurrence analysis can be found in version 0.14.0b1, please install stereopy==0.14.0.b1.
Ray
Co-occurrence analysis can be found in version 0.14.0b1, please install stereopy==0.14.0.b1.
Ray
Thank you for your reply. This problem has been solved by update stereopy into version 0.14.0b1.
When I run data.tl.co_occurrence() function in version 0.13.0b1, I met the following problem: `data.tl.co_occurrence( method='stereopy', cluster_res_key='leiden', res_key='co_occurrence', dist_thres=300, # max threshold to measure co-occurence steps=10, # step numbers to divide threshold interval evenly genelist=None, gene_thresh=0, # min threshold for gene expression in a cell n_jobs=-1 ) File ~/miniconda3/envs/stereopy/lib/python3.8/site-packages/stereopy-0.13.0b1-py3.8.egg/stereo/algorithm/algorithm_base.py:91, in AlgorithmBase.get_attribute_helper(item, stereo_exp_data, res) 89 import(f"stereo.algorithm.{item}") 90 except: ---> 91 raise AttributeError(f"No attribute named 'StPipeline.{item}'") 93 # TODO: this may be not the best way to get sub-class 94 # num of subclasses may be like 100-200 at most 95 for sub_cls in AlgorithmBase.subclasses():
AttributeError: No attribute named 'StPipeline.co_occurrence' ` It seems version update brings too much function errors and object inheriting problems. I have submitted some of them in github issures. Cloud you please give us some methods to solve them?