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Align MOON helpers with current cosmosR #73

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a27f4c5
Align MOON helpers with current cosmosR
Aug 26, 2026
eb1d6bd
Fix fast-suite pypath import isolation
Aug 26, 2026
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8 changes: 7 additions & 1 deletion docs/src/api.rst
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Original file line number Diff line number Diff line change
Expand Up @@ -24,15 +24,22 @@ MOON

methods.prepare_metab_inputs
methods.is_expressed
methods.meta_network_cleanup
methods.filter_pkn_expressed_genes
methods.filter_pkn_expressed_genes_fast
methods.filter_input_nodes_not_in_pkn
methods.keep_controllable_neighbours
methods.keep_observable_neighbours
methods.compress_same_children
methods.run_moon_core
methods.run_moon
methods.filter_incoherent_TF_target
methods.filter_incohrent_TF_target
methods.decompress_moon_result
methods.reduce_solution_network
methods.reduce_solution_network_double_thresh
methods.get_moon_scoring_network
methods.translate_column_HMDB
methods.translate_res

.. _api-topological:
Expand Down Expand Up @@ -307,4 +314,3 @@ Utilities
utils.subset_df_with_nodes
utils.node_attrs_from_corneto
utils.edge_attrs_from_corneto

4 changes: 2 additions & 2 deletions docs/src/vignettes/A_moon.ipynb
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Expand Up @@ -284,9 +284,9 @@
"outputs": [],
"source": [
"sig_input = nc.methods.filter_input_nodes_not_in_pkn(sig_input, meta_network)\n",
"meta_network = nc.methods.keep_controllable_neighbours(sig_input, meta_network)\n",
"meta_network = nc.methods.keep_controllable_neighbours(sig_input, meta_network, n_steps=6)\n",
"metab_input = nc.methods.filter_input_nodes_not_in_pkn(metab_input, meta_network)\n",
"meta_network = nc.methods.keep_observable_neighbours(metab_input, meta_network)\n",
"meta_network = nc.methods.keep_observable_neighbours(metab_input, meta_network, n_steps=6)\n",
"sig_input = nc.methods.filter_input_nodes_not_in_pkn(sig_input, meta_network)"
]
},
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