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View Code? Open in Web Editor NEWImplementation of the Psychiatric Omnilocus Prioritization Score from https://www.nature.com/articles/s41380-022-01542-6
License: The Unlicense
Implementation of the Psychiatric Omnilocus Prioritization Score from https://www.nature.com/articles/s41380-022-01542-6
License: The Unlicense
home/testing tools/PsyOPS$ python PsyOPS.py --GWAS-hit-file Howard_102_MDD.tsv --output-file PsyOPS_Clust2_MDD.tsv
Loaded 102 autosomal GWAS hits from Howard_102_MDD.tsv
TypeError: unhashable type: 'set'
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "PsyOPS.py", line 118, in
alias_to_gene = alias_to_gene[alias_to_gene.isin(genes.gene)]
File "/opt/conda/lib/python3.6/site-packages/pandas/core/series.py", line 4698, in isin
result = algorithms.isin(self, values)
File "/opt/conda/lib/python3.6/site-packages/pandas/core/algorithms.py", line 475, in isin
return f(comps, values)
File "pandas/_libs/hashtable_func_helper.pxi", line 454, in pandas._libs.hashtable.ismember_object
SystemError: <built-in method view of numpy.ndarray object at 0x7fb147995490> returned a result with an error set
Hello,
Thanks a lot for this interesting method. I tried it, but I keep getting assertion errors, even with your example file. Do you have any idea why?
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