pertpy 0.9.5__py3-none-any.whl → 0.10.0__py3-none-any.whl

pertpy/tools/_perturbation_space/_simple.py

@@ -181,7 +181,6 @@ class PseudobulkSpace(PerturbationSpace):
         adata: AnnData,
         groupby: str,
         *,
-        show: bool = True,
         return_fig: bool = False,
         **kwargs,
     ) -> Figure | None:
@@ -212,10 +211,9 @@ class PseudobulkSpace(PerturbationSpace):
         """
         fig = dc.plot_psbulk_samples(adata, groupby, return_fig=True, **kwargs)
 
-        if show:
-            plt.show()
         if return_fig:
             return fig
+        plt.show()
         return None
 
 

pertpy/tools/_scgen/_scgen.py

@@ -654,7 +654,6 @@ class Scgen(JaxTrainingMixin, BaseModelClass):
         stim_key: str,
         *,
         fontsize: float = 14,
-        show: bool = True,
         return_fig: bool = False,
     ) -> Figure | None:
         """Plots the dot product between delta and latent representation of a linear classifier.
@@ -705,10 +704,9 @@ class Scgen(JaxTrainingMixin, BaseModelClass):
         ax = plt.gca()
         ax.grid(False)
 
-        if show:
-            plt.show()
         if return_fig:
             return plt.gcf()
+        plt.show()
         return None
 
 

{pertpy-0.9.5.dist-info → pertpy-0.10.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: pertpy
-Version: 0.9.5
+Version: 0.10.0
 Summary: Perturbation Analysis in the scverse ecosystem.
 Project-URL: Documentation, https://pertpy.readthedocs.io
 Project-URL: Source, https://github.com/scverse/pertpy
@@ -57,8 +57,8 @@ Requires-Dist: pyarrow
 Requires-Dist: requests
 Requires-Dist: rich
 Requires-Dist: scanpy[leiden]
+Requires-Dist: scikit-learn>=1.4
 Requires-Dist: scikit-misc
-Requires-Dist: scipy
 Requires-Dist: scvi-tools
 Requires-Dist: sparsecca
 Provides-Extra: coda

{pertpy-0.9.5.dist-info → pertpy-0.10.0.dist-info}/RECORD

@@ -1,11 +1,11 @@
-pertpy/__init__.py,sha256=r5QhDw2-Ls4yYLs1kJJVe_r6dstQ7SjoASFutlTU9JA,658
-pertpy/_doc.py,sha256=pVt5Iegvh4rC1N81fd9e4cwmoGPNSgttZxxPWbLK6Bs,453
+pertpy/__init__.py,sha256=SGZpJmqp7CRJfINcZ8YFM8pIR2LKPQ7wlMttiaJAQ5g,659
+pertpy/_doc.py,sha256=jT8GIw3DVk-wLnX5qPEPaAH3Y_Jv2KAoXBX2jlCkJKY,437
 pertpy/py.typed,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 pertpy/data/__init__.py,sha256=ah3yvoxkgbdMUNAWxS3SyqcUuVamBOSeuWkF2QRAEwM,2703
 pertpy/data/_dataloader.py,sha256=ENbk1T3w3N6tVI11V4FVUxuWFEwOHP8_kIB-ehiMlVQ,2428
 pertpy/data/_datasets.py,sha256=c_U2U2NvncPZc6vs6w_s77zmWqr8ywDpzmkx6edCfUE,65616
 pertpy/metadata/__init__.py,sha256=zoE_VXNyuKa4nlXlUk2nTgsHRW3jSQSpDEulcCnzOT0,222
-pertpy/metadata/_cell_line.py,sha256=Ell5PDVoMlrhHXPDKGCiPGwNY0DAeghbUUvTYL-SFF0,38919
+pertpy/metadata/_cell_line.py,sha256=RKRxm91PBAjx2S4ou5MGoSjEIkO5PV_okZT5HBdMO_M,38937
 pertpy/metadata/_compound.py,sha256=ywNNqtib0exHv0z8ctmTRf1Hk64tSGWSiUEffycxf6A,4755
 pertpy/metadata/_drug.py,sha256=8QDSyxiFl25JdS80EQJC_krg6fEe5LIQEE6BsV1r8nY,9006
 pertpy/metadata/_look_up.py,sha256=DoWp6OxIk_HyyyOhW1p8z5E68IZ31_nZDnqxk1rJqps,28778
@@ -13,23 +13,24 @@ pertpy/metadata/_metadata.py,sha256=hV2LTFrExddLNU_RsDkZju6lQUSRoP4OIn_dumCyQao,
 pertpy/metadata/_moa.py,sha256=u_OcMonjOeeoW5P9xOltquVSoTH3Vs80ztHsXf-X1DY,4701
 pertpy/plot/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 pertpy/preprocessing/__init__.py,sha256=VAPFaeq2_qCvdFkQTCj_Hm460HC4Tersu8Rig_tnp_Y,71
-pertpy/preprocessing/_guide_rna.py,sha256=D9hEh8LOOTs_UfVBsBW3b-o6ipRFq09J471Hg1s0tlM,7963
+pertpy/preprocessing/_guide_rna.py,sha256=72NbKsgvbA9AgVU0l0pkwKH2KKX4qdAth32lRTGl9hA,12319
+pertpy/preprocessing/_guide_rna_mixture.py,sha256=NJYU6gUJp_lKHKf_P5kS8QzAnkOnmX8snECmqvoNprM,6458
 pertpy/tools/__init__.py,sha256=NUTwCGxRdzUzLTgsS3r7MywENwPAdcGZDKrl83sU8mo,2599
-pertpy/tools/_augur.py,sha256=Vghsx5-fYlaEeu__8-HUg6v5_KoVNhiRDjhgE3pORpY,55339
-pertpy/tools/_cinemaot.py,sha256=U6vCb_mI4ZPFshYgsx-hOOsDA1IPwI7ZR_-IH4F9s7s,39621
-pertpy/tools/_dialogue.py,sha256=BShXZ1ehO2eMbP5PV-ONJ-1SsxD6h9nAN7bGQ4_F6Rw,51906
-pertpy/tools/_enrichment.py,sha256=jxVdOrpS_lAu7GCpemgdB4JJvsGH9SJTQsAKLBKi9Tc,21640
+pertpy/tools/_augur.py,sha256=tZXlVeXvF7oGWXTEeVhN-5mbaNUSD1xIo40tKD_l1rg,54633
+pertpy/tools/_cinemaot.py,sha256=jkJCoTX2m-xVqQs4Iq8LbHWvQyH06-SCMBYczYXUzLE,39573
+pertpy/tools/_dialogue.py,sha256=NGf3yiUntWp5P0WmXHErgqietw1eyXqr40QCpHUkMZM,52076
+pertpy/tools/_enrichment.py,sha256=NYBVvnGDAeoWfTEhezWBUWeNugZDRisMpZMsU0lpA_s,21592
 pertpy/tools/_kernel_pca.py,sha256=_EJ9WlBLjHOafF34sZGdyBgZL6Fj0WiJ1elVT1XMmo4,1579
-pertpy/tools/_milo.py,sha256=SQqknT2zkzI0pcUmTm0ijWMs7CFMRiyRnXt9rC0jvmg,43811
-pertpy/tools/_mixscape.py,sha256=T-oUHDnepao5aujAHw9bAbbQHPSK6oD_8Wr_mw4U0nc,52089
+pertpy/tools/_milo.py,sha256=Z87RETCz7loUVov5WhrT0ieqJQrAHgknWcpU6qci_VM,43619
+pertpy/tools/_mixscape.py,sha256=nNFWVJeudEiDQ7i5FTXF0xWdOILh2rIF2YyFbZuz6jE,57015
 pertpy/tools/decoupler_LICENSE,sha256=OXLcl0T2SZ8Pmy2_dmlvKuetivmyPd5m1q-Gyd-zaYY,35149
 pertpy/tools/transferlearning_MMD_LICENSE,sha256=MUvDA-o_j9htRpI8fStVdCRuyLdPkQUuIH0a_EIc57w,1069
 pertpy/tools/_coda/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-pertpy/tools/_coda/_base_coda.py,sha256=Uxb_vAORL77LkUri8QqL9SxaULK4hfpgRGsCQdtsAgk,111808
+pertpy/tools/_coda/_base_coda.py,sha256=w5Tgd73tUYJ9209xncM_QhcnGfeDEgRHss8M_1NQSoM,111630
 pertpy/tools/_coda/_sccoda.py,sha256=gGmyd0MGpchulV9d4PxKSmGORyZ8fCDS9tQVPOuF_Og,22622
 pertpy/tools/_coda/_tasccoda.py,sha256=vNk43OQHn7pBLsez2rmSj0bMZKOf8jZTI7G8TfBByRg,30665
 pertpy/tools/_differential_gene_expression/__init__.py,sha256=SEydWg0iT3Y1pApjnCAOuHxFeI6xVUfgyBHv2s3LADU,487
-pertpy/tools/_differential_gene_expression/_base.py,sha256=yc9DBj2KgJVk4mkjz7EDFoBj8WBZW92Z4ayD-Xdla1g,38514
+pertpy/tools/_differential_gene_expression/_base.py,sha256=4BTJx1bfvDdFpJPFA_jMBVqVFWAYASM01Ec0ObIRgeE,38322
 pertpy/tools/_differential_gene_expression/_checks.py,sha256=SxNHJDsCYZ6rWLTMEymEBpigs_B9cnXyw0kkAe1l6e0,1675
 pertpy/tools/_differential_gene_expression/_dge_comparison.py,sha256=9HjmWkrqZhj_ZJeR-ymyEDzpRJNx7JiYJoStvCfKuCU,4188
 pertpy/tools/_differential_gene_expression/_edger.py,sha256=ttgTocAYnr8BTDcixwHGjRZew6zeja-U77TLKkSdd1Y,4857
@@ -38,20 +39,20 @@ pertpy/tools/_differential_gene_expression/_simple_tests.py,sha256=tTSr0Z2Qbpxdy
 pertpy/tools/_differential_gene_expression/_statsmodels.py,sha256=jBCtaCglOvvVjkIBGXuTCTDB6g2AJsZMCf7iOlDyn48,2195
 pertpy/tools/_distances/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 pertpy/tools/_distances/_distance_tests.py,sha256=mNmNu5cX0Wj5IegR6x5K-CbBSid8EhrH2jZPQxuvK4U,13521
-pertpy/tools/_distances/_distances.py,sha256=CmrOKevVCTY9j3PzhpVc3ga6SwZy9wbbJa0_7bwLMWQ,50569
+pertpy/tools/_distances/_distances.py,sha256=h0FHkWF4MwfXO2ZbFHicgwVXsit-24z8PtfFzRrky2E,50497
 pertpy/tools/_perturbation_space/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 pertpy/tools/_perturbation_space/_clustering.py,sha256=m52-J8c8OnIXRCf3NoFabIO2yMHIuy1X0m0amtsK2vE,3556
 pertpy/tools/_perturbation_space/_comparison.py,sha256=rLO-EGU0I7t5MnLw4k1gYU-ypRu-JsDPLat1t4h2U2M,4329
 pertpy/tools/_perturbation_space/_discriminator_classifiers.py,sha256=OA2eZeG_4iuW1T5ilsRIkS0rU-azmwEch7IuB546KSY,21617
 pertpy/tools/_perturbation_space/_metrics.py,sha256=y8-baP8WRdB1iDgvP3uuQxSCDxA2lcxvEHHM2C_vWHY,3248
 pertpy/tools/_perturbation_space/_perturbation_space.py,sha256=F-F-_pMCTWxjkVQSLre6hrE6PeRfCRscpt2ug3NlfuU,19531
-pertpy/tools/_perturbation_space/_simple.py,sha256=RQv6B0xPq4RJa5zlkLkxMYXQ3LAJLglmQDGaTMseaA8,14238
+pertpy/tools/_perturbation_space/_simple.py,sha256=tgIDXcJ-uG59BpU64gAq_RbCb_AQn3UxvJi4Gjm48BY,14190
 pertpy/tools/_scgen/__init__.py,sha256=uERFlFyF88TH0uLiwmsUGEfHfLVCiZMFuk8gO5f7164,45
 pertpy/tools/_scgen/_base_components.py,sha256=Qq8myRUm43q9XBrZ9gBggfa2cSV2wbz_KYoLgH7iF1A,3009
-pertpy/tools/_scgen/_scgen.py,sha256=oVY2JNYhDn1OrPoq22ATIP5-H615BafidBCC0eC5C-4,30756
+pertpy/tools/_scgen/_scgen.py,sha256=vPpCXUGVvrP5UxuaHuEaYK7D_A27HZcbFYpSCjMUcao,30708
 pertpy/tools/_scgen/_scgenvae.py,sha256=v_6tZ4wY-JjdMH1QVd_wG4_N0PoaqB-FM8zC2JsDu1o,3935
 pertpy/tools/_scgen/_utils.py,sha256=1upgOt1FpadfvNG05YpMjYYG-IAlxrC3l_ZxczmIczo,2841
-pertpy-0.9.5.dist-info/METADATA,sha256=vuf16H5cVKgNKRg35pFSWN7Oa7tT4IOLqqymVzZfnr4,6927
-pertpy-0.9.5.dist-info/WHEEL,sha256=qtCwoSJWgHk21S1Kb4ihdzI2rlJ1ZKaIurTj_ngOhyQ,87
-pertpy-0.9.5.dist-info/licenses/LICENSE,sha256=OZ-ZkXM5CmExJiEMM90b_7dGNNvRpj7kdE-49AnrLuI,1070
-pertpy-0.9.5.dist-info/RECORD,,
+pertpy-0.10.0.dist-info/METADATA,sha256=U-9KOM65HXc4uHjsfbpQfu68sizlsKxsBQQGNNBAmFs,6940
+pertpy-0.10.0.dist-info/WHEEL,sha256=qtCwoSJWgHk21S1Kb4ihdzI2rlJ1ZKaIurTj_ngOhyQ,87
+pertpy-0.10.0.dist-info/licenses/LICENSE,sha256=OZ-ZkXM5CmExJiEMM90b_7dGNNvRpj7kdE-49AnrLuI,1070
+pertpy-0.10.0.dist-info/RECORD,,