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Augur example code throws a TypeError #524

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namsaraeva opened this issue Feb 6, 2024 · 0 comments · Fixed by #533
Closed

Augur example code throws a TypeError #524

namsaraeva opened this issue Feb 6, 2024 · 0 comments · Fixed by #533
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Augur example code:

import pertpy as pt
adata = pt.dt.bhattacherjee()
ag_rfc = pt.tl.Augur("random_forest_classifier")

data_15 = ag_rfc.load(adata, condition_label="Maintenance_Cocaine", treatment_label="withdraw_15d_Cocaine")
adata_15, results_15 = ag_rfc.predict(data_15, random_state=None, n_threads=4)
adata_15_permute, results_15_permute = ag_rfc.predict(data_15, augur_mode="permute", n_subsamples=100, random_state=None, n_threads=4)

data_48 = ag_rfc.load(adata, condition_label="Maintenance_Cocaine", treatment_label="withdraw_48h_Cocaine")
adata_48, results_48 = ag_rfc.predict(data_48, random_state=None, n_threads=4)
adata_48_permute, results_48_permute = ag_rfc.predict(data_48, augur_mode="permute", n_subsamples=100, random_state=None, n_threads=4)
pvals = ag_rfc.predict_differential_prioritization(augur_results1=results_15, augur_results2=results_48, permuted_results1=results_15_permute, permuted_results2=results_48_permute)

The pvals pvals = ag_rfc.predict_differential_prioritization(augur_results1=results_15, augur_results2=results_48, permuted_results1=results_15_permute, permuted_results2=results_48_permute) can't be calculated due to TypeError: Passing a set as an indexer is not supported. Use a list instead.

grafik

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@namsaraeva namsaraeva added the bug Something isn't working label Feb 6, 2024
@namsaraeva namsaraeva self-assigned this Feb 6, 2024
namsaraeva added a commit that referenced this issue Feb 10, 2024
@namsaraeva
fix Augur example code throws a TypeError #524
3970589
@namsaraeva namsaraeva linked a pull request Feb 10, 2024 that will close this issue
Fixed Augur bug #533
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Zethson pushed a commit that referenced this issue Feb 10, 2024
@namsaraeva @pre-commit-ci
Fixed Augur bug (#533)
8f2df26 
* fix Augur example code throws a TypeError #524

* added augur example plots

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* 1st attempt to fix precommit

---------

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
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Fixed Augur bug scverse/pertpy
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