gwaslab 3.5.4__py3-none-any.whl → 3.5.6__py3-none-any.whl

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Files changed (34) hide show
  1. gwaslab/__init__.py +3 -1
  2. gwaslab/g_Sumstats.py +56 -9
  3. gwaslab/g_SumstatsPair.py +16 -12
  4. gwaslab/g_SumstatsSet.py +663 -0
  5. gwaslab/g_headers.py +131 -0
  6. gwaslab/g_meta.py +2 -1
  7. gwaslab/g_version.py +3 -3
  8. gwaslab/hm_harmonize_sumstats.py +91 -1
  9. gwaslab/io_preformat_input.py +29 -7
  10. gwaslab/io_read_pipcs.py +23 -0
  11. gwaslab/io_to_formats.py +45 -44
  12. gwaslab/qc_check_datatype.py +65 -42
  13. gwaslab/qc_fix_sumstats.py +1 -1
  14. gwaslab/util_ex_ldproxyfinder.py +162 -3
  15. gwaslab/util_ex_ldsc.py +9 -0
  16. gwaslab/util_ex_run_2samplemr.py +34 -0
  17. gwaslab/util_ex_run_clumping.py +4 -2
  18. gwaslab/util_in_fill_data.py +28 -3
  19. gwaslab/util_in_filter_value.py +66 -1
  20. gwaslab/util_in_merge.py +51 -0
  21. gwaslab/viz_aux_save_figure.py +2 -1
  22. gwaslab/viz_plot_credible_sets.py +99 -0
  23. gwaslab/viz_plot_effect.py +283 -0
  24. gwaslab/viz_plot_miamiplot2.py +1 -1
  25. gwaslab/viz_plot_mqqplot.py +31 -11
  26. gwaslab/viz_plot_regional2.py +133 -32
  27. gwaslab/viz_plot_stackedregional.py +64 -34
  28. {gwaslab-3.5.4.dist-info → gwaslab-3.5.6.dist-info}/METADATA +4 -4
  29. {gwaslab-3.5.4.dist-info → gwaslab-3.5.6.dist-info}/RECORD +33 -28
  30. {gwaslab-3.5.4.dist-info → gwaslab-3.5.6.dist-info}/WHEEL +1 -1
  31. gwaslab/vis_plot_credible sets.py +0 -0
  32. {gwaslab-3.5.4.dist-info → gwaslab-3.5.6.dist-info}/LICENSE +0 -0
  33. {gwaslab-3.5.4.dist-info → gwaslab-3.5.6.dist-info}/LICENSE_before_v3.4.39 +0 -0
  34. {gwaslab-3.5.4.dist-info → gwaslab-3.5.6.dist-info}/top_level.txt +0 -0
gwaslab/viz_plot_stackedregional.py CHANGED
@@ -38,9 +38,10 @@ from gwaslab.io_to_pickle import load_data_from_pickle
38
38
  from gwaslab.g_Sumstats import Sumstats
39
39
  from gwaslab.viz_aux_save_figure import save_figure
40
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  from gwaslab.viz_plot_mqqplot import mqqplot
41
+ from gwaslab.viz_plot_credible_sets import _plot_cs
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  import matplotlib.patches as patches
42
43
 
43
- def plot_stacked_mqq(objects,
44
+ def plot_stacked_mqq( objects,
44
45
  vcfs=None,
45
46
  mode="r",
46
47
  mqqratio=3,
@@ -62,10 +63,12 @@ def plot_stacked_mqq(objects,
62
63
  region_ld_legends = None,
63
64
  fontsize=9,
64
65
  font_family="Arial",
66
+ common_ylabel=True,
65
67
  build="99",
66
68
  save=None,
67
69
  save_args=None,
68
70
  verbose=True,
71
+ pm=None,
69
72
  log=Log(),
70
73
  **mqq_args
71
74
  ):
@@ -74,10 +77,28 @@ def plot_stacked_mqq(objects,
74
77
  # load sumstats
75
78
 
76
79
  ##########################################################################################################################################
80
+ if pm is None:
81
+ pm=[]
82
+
77
83
  sumstats_list = []
78
84
  for each_object in objects:
79
- sumstats_list.append(each_object.data)
85
+ if type(each_object) is Sumstats:
86
+ if "P" in each_object.data.columns or "MLOG10P" in each_object.data.columns:
87
+ sumstats_list.append(each_object.data)
88
+ pm.append("m")
89
+ else:
90
+ if "PIP" in each_object.columns:
91
+ sumstats_list.append(each_object)
92
+ pm.append("pip")
93
+ common_ylabel=False
94
+
95
+ if common_ylabel==True:
96
+ rr_ylabel=False
97
+ else:
98
+ rr_ylabel=True
80
99
 
100
+ log.write(" -Panel mode:{}...".format(pm),verbose=verbose)
101
+
81
102
  if fig_args is None:
82
103
  fig_args = {"dpi":200}
83
104
  if save_args is None:
@@ -157,7 +178,6 @@ def plot_stacked_mqq(objects,
157
178
  ##########################################################################################################################################
158
179
  mqq_args_for_each_plot = _sort_args(mqq_args, n_plot)
159
180
 
160
-
161
181
  ##########################################################################################################################################
162
182
  # get x axis dict
163
183
  if mode=="m" or mode=="r":
@@ -200,7 +220,7 @@ def plot_stacked_mqq(objects,
200
220
  region_lead_grid=False,
201
221
  region_ld_legend=region_ld_legend,
202
222
  gtf_path="default",
203
- rr_ylabel=False,
223
+ rr_ylabel=rr_ylabel,
204
224
  figax=figax,
205
225
  _get_region_lead=True,
206
226
  _if_quick_qc=False,
@@ -213,33 +233,42 @@ def plot_stacked_mqq(objects,
213
233
  lead_variants_is[index] = lead_snp_is
214
234
  lead_variants_is_color[index] = lead_snp_is_color
215
235
  else:
216
- # plot only the scatter plot
217
- fig,log,lead_snp_is,lead_snp_is_color = mqqplot(sumstats,
218
- chrom="CHR",
219
- pos="POS",
220
- p="P",
221
- region=region,
222
- mlog10p="MLOG10P",
223
- snpid="SNPID",
224
- vcf_path=vcfs[index],
225
- region_lead_grid=False,
226
- fontsize=fontsize,
227
- font_family=font_family,
228
- mode=mode,
229
- rr_ylabel=False,
230
- region_ld_legend=region_ld_legend,
231
- gtf_path=None,
232
- figax=figax,
233
- _get_region_lead=True,
234
- _if_quick_qc=False,
235
- _posdiccul=_posdiccul,
236
- build=build,
237
- verbose=verbose,
238
- log=log,
239
- **mqq_args_for_each_plot[index]
240
- )
241
- lead_variants_is[index] = lead_snp_is
242
- lead_variants_is_color[index] = lead_snp_is_color
236
+ if pm[index]=="m":
237
+ # plot only the scatter plot
238
+ fig,log,lead_snp_is,lead_snp_is_color = mqqplot(sumstats,
239
+ chrom="CHR",
240
+ pos="POS",
241
+ p="P",
242
+ region=region,
243
+ mlog10p="MLOG10P",
244
+ snpid="SNPID",
245
+ vcf_path=vcfs[index],
246
+ region_lead_grid=False,
247
+ fontsize=fontsize,
248
+ font_family=font_family,
249
+ mode=mode,
250
+ rr_ylabel=rr_ylabel,
251
+ region_ld_legend=region_ld_legend,
252
+ gtf_path=None,
253
+ figax=figax,
254
+ _get_region_lead=True,
255
+ _if_quick_qc=False,
256
+ _posdiccul=_posdiccul,
257
+ build=build,
258
+ verbose=verbose,
259
+ log=log,
260
+ **mqq_args_for_each_plot[index]
261
+ )
262
+ lead_variants_is[index] = lead_snp_is
263
+ lead_variants_is_color[index] = lead_snp_is_color
264
+ elif pm[index]=="pip":
265
+ fig,log =_plot_cs(sumstats,
266
+ region=region,
267
+ _posdiccul=_posdiccul,
268
+ figax=figax,
269
+ log=log,
270
+ verbose=verbose,
271
+ **mqq_args_for_each_plot[index])
243
272
  if len(region_chromatin_files)>0 and mode=="r":
244
273
  xlim_i = axes[-1].get_xlim()
245
274
  fig = _plot_chromatin_state( region_chromatin_files = region_chromatin_files,
@@ -295,9 +324,10 @@ def plot_stacked_mqq(objects,
295
324
  _draw_grid_line_for_lead_variants(mode, lead_variants_is,lead_variants_is_color, n_plot, axes, region_lead_grid_line,region_chromatin_files,region_lead_grids)
296
325
 
297
326
  ##########################################################################################################################################
298
- _drop_old_y_labels(axes, n_plot)
299
-
300
- _add_new_y_label(mode, fig, gene_track_height,n_plot,subplot_height ,fontsize,font_family)
327
+ if common_ylabel==True:
328
+ _drop_old_y_labels(axes, n_plot)
329
+
330
+ _add_new_y_label(mode, fig, gene_track_height,n_plot,subplot_height ,fontsize,font_family)
301
331
 
302
332
  ##########################################################################################################################################
303
333
  save_figure(fig = fig, save = save, keyword= "stacked_" + mode, save_args=save_args, log = log, verbose=verbose)
{gwaslab-3.5.4.dist-info → gwaslab-3.5.6.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
1
- Metadata-Version: 2.1
1
+ Metadata-Version: 2.2
2
2
  Name: gwaslab
3
- Version: 3.5.4
3
+ Version: 3.5.6
4
4
  Summary: A collection of handy tools for GWAS SumStats
5
5
  Author-email: Yunye <yunye@gwaslab.com>
6
6
  Project-URL: Homepage, https://cloufield.github.io/gwaslab/
@@ -14,7 +14,7 @@ License-File: LICENSE
14
14
  License-File: LICENSE_before_v3.4.39
15
15
  Requires-Dist: pandas!=1.5,>=1.3
16
16
  Requires-Dist: numpy<2,>=1.21.2
17
- Requires-Dist: matplotlib!=3.7.2,<3.9,>=3.5
17
+ Requires-Dist: matplotlib<3.9,>=3.8
18
18
  Requires-Dist: seaborn>=0.12
19
19
  Requires-Dist: scipy>=1.12
20
20
  Requires-Dist: pySAM==0.22.1
@@ -51,7 +51,7 @@ Warning: Known issues of GWASLab are summarized in [https://cloufield.github.io/
51
51
  ### install via pip
52
52
 
53
53
  ```
54
- pip install gwaslab==3.5.0
54
+ pip install gwaslab==3.5.4
55
55
  ```
56
56
 
57
57
  ```python
{gwaslab-3.5.4.dist-info → gwaslab-3.5.6.dist-info}/RECORD RENAMED
@@ -1,4 +1,4 @@
1
- gwaslab/__init__.py,sha256=pP_OQwkaXMJokVVU_o6AXnJEBs2HtaMtpcHIls3ezO8,2486
1
+ gwaslab/__init__.py,sha256=2pIyLhHrPeyBYlcs3QsWElmUWPGIxoCf68awTk05YQk,2585
2
2
  gwaslab/bd_common_data.py,sha256=2voBqMrIsII1TN5T6uvyDax90fWcJK1Stmo1ZHNGGsE,13898
3
3
  gwaslab/bd_config.py,sha256=TP-r-DPhJD3XnRYZbw9bQHXaDIkiRgK8bG9HCt-UaLc,580
4
4
  gwaslab/bd_download.py,sha256=cDDk2C5IvjeAzvPvVYGTkI4Ss33DUtEDjGo8eAbQRvY,15663
@@ -6,21 +6,24 @@ gwaslab/bd_get_hapmap3.py,sha256=FQpwbhWUPFT152QtiLevEkkN4YcVDIeKzoK0Uz1NlRo,410
6
6
  gwaslab/cache_manager.py,sha256=HOTnSkCOyGEPLRl90WT8D_6pAdI8d8AzenMIDGuCeWc,28113
7
7
  gwaslab/g_Log.py,sha256=C3Zv-_6c3C9ms8bgQ-ytplz22sjk7euqXYkWr9zNeAs,1573
8
8
  gwaslab/g_Phenotypes.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
9
- gwaslab/g_Sumstats.py,sha256=eqEpHEH5fnBMsOIufVzwaRp0_vCsuHvGEUe5OzNL41s,36969
10
- gwaslab/g_SumstatsPair.py,sha256=20snPb4SlI6ftMGVjgxAuyxsxYRQF-GzzlBSnoB-3Lo,8851
9
+ gwaslab/g_Sumstats.py,sha256=QwXIqnjEd5v1jFRBFmeVlWJr3fO6Hx5hudLOgEf5fmc,39321
10
+ gwaslab/g_SumstatsPair.py,sha256=71fPfwhr9pdH9pdyX17bSEu8ah_WVpTVU0nc_4uln4Y,8766
11
+ gwaslab/g_SumstatsSet.py,sha256=AiTISWPfmu8NTGa8j9Yuts8DNw1pEUENYyPoS0HXp5I,29866
11
12
  gwaslab/g_SumstatsT.py,sha256=u_DighLMnMxwTLnqm-B58pA0G6WXRj6pudPyKMVKjSU,2133
12
13
  gwaslab/g_Sumstats_summary.py,sha256=FECvvFXJVKaCX5dggBvvk9YvJ6AbdbcLfjltysX7wEE,6380
13
- gwaslab/g_meta.py,sha256=htWlgURWclm9R6UqFcX1a93WN27xny7lGUeyJZOtszQ,2583
14
+ gwaslab/g_headers.py,sha256=Q37MZgc2G1bMzzJX94Kq6GoRYJyfUxQX50CvyIerXww,6524
15
+ gwaslab/g_meta.py,sha256=Orj8WhFvbylDmaAp9Px_GRUoyEBVML8MLa9829sNM0o,2588
14
16
  gwaslab/g_vchange_status.py,sha256=w3zsYYOcCaI3PTeboonvkQjudzUAfVIgATzRdiPViZs,1939
15
- gwaslab/g_version.py,sha256=Hb-918M6CfBBxPHu3teUDFAW15IWJnRijTB8vNR4F8c,1885
17
+ gwaslab/g_version.py,sha256=XU8rILb0iLB_g-Daw4cuksdSLl7P_mQO9M06voc1t1k,1889
16
18
  gwaslab/hm_casting.py,sha256=FqP4EQl83Q2OKLw004OgLIvUH795TVCGwziLk5jsHqY,11368
17
- gwaslab/hm_harmonize_sumstats.py,sha256=_sZ8soikAxDokw-dcr_CLguBB8OmTmPPS04MfmsJc_Q,79509
19
+ gwaslab/hm_harmonize_sumstats.py,sha256=ymM33bwOOkLteiLXUuSSzURudgCrkVMTR7wUwXf1jQs,84381
18
20
  gwaslab/hm_rsid_to_chrpos.py,sha256=ODWREO0jPN0RAfNzL5fRzSRANfhiksOvUVPuEsFZQqA,6552
19
- gwaslab/io_preformat_input.py,sha256=J8Ny4OPMaLVdo2nP8lTM-c5A8LSdqphSrp9G4i9JjDQ,24097
21
+ gwaslab/io_preformat_input.py,sha256=cfoywijnk1z1QeTMOXL_lqcheI3GA_Ff4uOUNxAqCq4,25331
20
22
  gwaslab/io_process_args.py,sha256=0ljJOVGsD7qPuBLvdfvR7Vrh7zXPlvfPg-rhOw8xRpQ,1366
21
23
  gwaslab/io_read_ldsc.py,sha256=wsYXpH50IchBKd2dhYloSqc4YgnDkiwMsAweaCoN5Eo,12471
24
+ gwaslab/io_read_pipcs.py,sha256=17ycVJT1qwx3MBzcRdTlAf_7RiFKGilgoc7eq7kFtog,994
22
25
  gwaslab/io_read_tabular.py,sha256=EG-C6KhCutt4J4LlOMgXnqzJvU-EZXzVhMvaDFnHrMM,2380
23
- gwaslab/io_to_formats.py,sha256=hiIaR-JKOVehv7Y14_SklvzPi_E4U-wUybjKWfPyIus,32587
26
+ gwaslab/io_to_formats.py,sha256=uAmZ4xzVoJqXGXxwTZlbppli4fPc2EshnuTJm2DC4v8,32799
24
27
  gwaslab/io_to_pickle.py,sha256=HhePU0VcaGni0HTNU0BqoRaOnrr0NOxotgY6ISdx3Ck,1833
25
28
  gwaslab/ldsc_irwls.py,sha256=83JbAMAhD0KOfpv4IJa6LgUDfQjp4XSJveTjnhCBJYQ,6142
26
29
  gwaslab/ldsc_jackknife.py,sha256=XrWHoKS_Xn9StG1I83S2vUMTertsb-GH-_gOFYUhLeU,17715
@@ -28,52 +31,54 @@ gwaslab/ldsc_ldscore.py,sha256=ZOxMvV3PhZzLsTmkKQqjabk_9PdrCTtPhbrdrpGmRAk,14580
28
31
  gwaslab/ldsc_parse.py,sha256=MBnfgcWlV4oHp9MoDRh1mpilaHhAR15Af77hMFn4-5k,10564
29
32
  gwaslab/ldsc_regressions.py,sha256=yzbGjgNV7u-SWXNPsh9S8y9mK97Bim_Nmad9G9V18ZU,30078
30
33
  gwaslab/ldsc_sumstats.py,sha256=O0olsDxKlh1MJ1gAuEN1t40rxhajOEwOQ20ak7xoDrI,26245
31
- gwaslab/qc_check_datatype.py,sha256=kW68uk4dTLOU2b1dHoVat6n0loundDysAjIqxsXW28Q,3379
32
- gwaslab/qc_fix_sumstats.py,sha256=u0YfC70zop2roUfq6mLMNL49m8AHPF2G-j8dKqW25yY,98261
34
+ gwaslab/qc_check_datatype.py,sha256=mAM0LCMf9LseX44oeELG0croPlxfp7U8A8TH-Y5F6kQ,4453
35
+ gwaslab/qc_fix_sumstats.py,sha256=4lXedhYGsd6BAoApBr7kEly_GbVdcXgBQXMB5X2iN70,98262
33
36
  gwaslab/run_script.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
34
37
  gwaslab/util_abf_finemapping.py,sha256=LRcopjtkT-iXtKPAJIzR4qjPdhD7nrS_BGit4EW89FM,3054
35
38
  gwaslab/util_ex_calculate_ldmatrix.py,sha256=Z_spxbq6SHDS0v84I59YTTF40iyLQIOZbt0dmEcNJjw,15417
36
39
  gwaslab/util_ex_calculate_prs.py,sha256=9uJ588Sdj4V0vw3OZ9NeLECwOvW67f0IdLandVPS5RY,9442
37
40
  gwaslab/util_ex_gwascatalog.py,sha256=--Gde9HrsikfYTeFqSaYz0gUODr9wmv_gV6GZGNlElg,7688
38
- gwaslab/util_ex_ldproxyfinder.py,sha256=wWNW9wITWozj23gT41LR00WxU-rrHpGKbxs2H_3jEyM,9431
39
- gwaslab/util_ex_ldsc.py,sha256=dd3QUNX7eOJY_z4mkKIE9Ey_SQGE4ox0efhq28ah_LE,18592
41
+ gwaslab/util_ex_ldproxyfinder.py,sha256=HadmnjEv5EvZCHR5SFSAbqxZWJryEErJftCS0WhZUbs,16898
42
+ gwaslab/util_ex_ldsc.py,sha256=dMfL7hej0JzTOafPk6VYl5HUxB3eSp28wUKVWliIhlE,18937
40
43
  gwaslab/util_ex_plink_filter.py,sha256=pK1Yxtv9-J4rMOdVAG7VU9PktvI6-y4FxBiVEH0QuRs,1673
41
44
  gwaslab/util_ex_process_h5.py,sha256=ynFvo3zxgvOxWYL565v2IQf8P6iEuq7UlKQ_ULxrd6Y,2831
42
45
  gwaslab/util_ex_process_ref.py,sha256=GQ0ZEWLxGpHLdBs3tqnAqKn3Pqx1A1YvNbYrBLBvXeg,17126
43
- gwaslab/util_ex_run_2samplemr.py,sha256=5c0DGF694T9j0Y58L2I7pr1_Z1hfpaatIgix7P5oPA8,9127
44
- gwaslab/util_ex_run_clumping.py,sha256=bs9CJENMhwVXolCNygaYtso5ikPrdPMiV13tGA0ttxg,7915
46
+ gwaslab/util_ex_run_2samplemr.py,sha256=wBr5s0XKlzqLe5ZyskvpeWUv-0fgnynBk0DCfnax-sc,10429
47
+ gwaslab/util_ex_run_clumping.py,sha256=yvUhKi83KhXfE5yPy2i47B58BMACZ_r5gt3-uN8Znbo,7908
45
48
  gwaslab/util_ex_run_coloc.py,sha256=u57h8wPbTCOf6aY5u5DpzK1gv7inuDT8a15UGo-1ras,6288
46
49
  gwaslab/util_ex_run_susie.py,sha256=TXqiwBVq1io7XSlLF2_gNsYgxDLiKNnYE9pIjRWJ1Hc,5315
47
50
  gwaslab/util_in_calculate_gc.py,sha256=MWOXVzJv7SZx4i2_ncRiqsiEOADc7EfghaUzgGy4jaE,2219
48
51
  gwaslab/util_in_calculate_power.py,sha256=JfHJFg3tNF0f4NHgWlzVW2mSxCiP07mAHIyEfVfxTak,10360
49
52
  gwaslab/util_in_convert_h2.py,sha256=a8Cbudt3xn9WP2bPc-7ysuowB-LYub8j8GeDXl7Lk7Q,6483
50
53
  gwaslab/util_in_correct_winnerscurse.py,sha256=Gp--yAQ8MMzdkWIvXP9C1BHVjZc-YzqHfYWhAj19w9w,2110
51
- gwaslab/util_in_fill_data.py,sha256=iVq5WLWwFI03v9HyvBanu5si3j2p-oyPFTl8jsX69xM,14693
52
- gwaslab/util_in_filter_value.py,sha256=dY4X66N9A4MHCRHjPqLYFufMM91ggLRwUBf_nJYh8Lg,23605
54
+ gwaslab/util_in_fill_data.py,sha256=ZXdxRD7oUpQ-uG_5EVsS994rA1n3PqLbZ2TxOKz379w,15762
55
+ gwaslab/util_in_filter_value.py,sha256=KnHazy2Z3wSLULFRfp-Sm7TQ2gGLqU6kxnkhETgVPPg,26501
53
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  gwaslab/util_in_get_density.py,sha256=kpKXH69acMkeYVG5vs-VbJC3COhmuLBfYco-wuOxgjc,3934
54
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  gwaslab/util_in_get_sig.py,sha256=53NOh7KueLY3vJPTNhhb37KPAIgLEfcP3k2zIV61lc4,39845
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+ gwaslab/util_in_merge.py,sha256=KB5VKRTUUZ1XGYUxgCP_l3cWYanjthMdwiZ_DincCZQ,2020
55
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  gwaslab/util_in_meta.py,sha256=5K9lIZcIgUy0AERqHy1GvMN2X6dp45JUUgopuDLgt4o,11284
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  gwaslab/util_in_snphwe.py,sha256=-KpIDx6vn_nah6H55IkV2OyjXQVXV13XyBL069WE1wM,1751
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- gwaslab/vis_plot_credible sets.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  gwaslab/viz_aux_annotate_plot.py,sha256=3PyBioC-3ZBzqKT2JRv6vp-hZUXSqTTePIT5cblEvnQ,25334
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  gwaslab/viz_aux_chromatin.py,sha256=aWZaXOSvGyZY7wQcoFDaqHRYCSHZbi_K4Q70HruN9ts,4125
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  gwaslab/viz_aux_property.py,sha256=UIaivghnLXYpTwkKnXRK0F28Jbn9L6OaICk3K73WZaU,33
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  gwaslab/viz_aux_quickfix.py,sha256=cGX5i3WBmvKIiqck8V00caDg-pvKOO709Ux3DBXsUrM,18693
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  gwaslab/viz_aux_reposition_text.py,sha256=iRIP-Rkltlei068HekJcVubiqPrunBqvAoSQ1eHk04M,4304
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- gwaslab/viz_aux_save_figure.py,sha256=x_b4DlTSmHJddfQgoYoReCi4QQbQEtcwCWTKfGetfTA,2768
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+ gwaslab/viz_aux_save_figure.py,sha256=HwIRDMYpeXfkBgb7mqzLN7OVPMz163U-ZVOlQJABzeg,2811
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  gwaslab/viz_plot_compare_af.py,sha256=qtXW45-Sq_ugK8ZfqBYMpmf58SKi3lB3YyHnzn_akcE,5344
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  gwaslab/viz_plot_compare_effect.py,sha256=kq-rVWygHEeTBMOtd_jk8nK85ClZHU-ADSf4nI2gTKo,66604
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+ gwaslab/viz_plot_credible_sets.py,sha256=KxB7_bkDrLMgs6sk8HAnZWkllIRH-lEDCz5n5_Jnw68,3550
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+ gwaslab/viz_plot_effect.py,sha256=7p3YnGcgIG0ajwQSNCiHlmX9BvEeClwvQ-DhPe5LzSI,9750
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  gwaslab/viz_plot_forestplot.py,sha256=xgOnefh737CgdQxu5naVyRNBX1NQXPFKzf51fbh6afs,6771
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  gwaslab/viz_plot_miamiplot.py,sha256=rCFEp7VNuVqeBBG3WRkmFAtFklbF79BvIQQYiSY70VY,31238
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- gwaslab/viz_plot_miamiplot2.py,sha256=nA8xAI0ou3rBobm3DygOQSpunhZWwXVilKVd0v4Jfac,16213
69
- gwaslab/viz_plot_mqqplot.py,sha256=Pea0uNWe4ZW3S8z8BGQ_dIEWmnKWoxAgEMVxGsMJYxk,68560
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+ gwaslab/viz_plot_miamiplot2.py,sha256=tr3vRq6NLmoVoOSYbUkvXMHRONLLrvqjkRYN1iSX5-I,16214
74
+ gwaslab/viz_plot_mqqplot.py,sha256=u61iABMihbMCDNMVSuvTscjeteZKlfIlyEK4xls2dE0,69557
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  gwaslab/viz_plot_phe_heatmap.py,sha256=qoXVeFTIm-n8IinNbDdPFVBSz2yGCGK6QzTstXv6aj4,9532
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  gwaslab/viz_plot_qqplot.py,sha256=psQgVpP29686CEZkzQz0iRbApzqy7aE3GGiBcazVvNw,7247
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- gwaslab/viz_plot_regional2.py,sha256=rvvIU60pOJFiDReQFd_Q2MkthuwvNOUkptV1swP9uJM,39444
77
+ gwaslab/viz_plot_regional2.py,sha256=CRjuHnT4ghoInQ7AzcIQCrtk9jKxY8Kvc5biBXzT8Hg,43426
73
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  gwaslab/viz_plot_regionalplot.py,sha256=8u-5-yfy-UaXhaxVVz3Y5k2kBAoqzczUw1hyyD450iI,37983
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  gwaslab/viz_plot_rg_heatmap.py,sha256=PidUsgOiEVt6MfBPCF3_yDhOEytZ-I1q-ZD6_0pFrV4,13713
75
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  gwaslab/viz_plot_scatter_with_reg.py,sha256=PmUZDQl2q4Dme3HLPXEwf_TrMjwJADA-uFXNDBWUEa4,8333
76
- gwaslab/viz_plot_stackedregional.py,sha256=UefPxnd-EJApFdwcafE2k6jZqrfGKEjy51NhieiRaPM,17362
81
+ gwaslab/viz_plot_stackedregional.py,sha256=0U2TVyJHdk1Apk_7AT5bwwUeEpWeNcjbEVAWWoAsFoY,18613
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  gwaslab/viz_plot_trumpetplot.py,sha256=y4sAFjzMaSLuWrdr9_ao-wPYCK5DlP2ykiqulWsoN_k,42680
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83
  gwaslab/data/formatbook.json,sha256=N2nJs80HH98Rsu9FxaSvIQO9J5yIV97WEtAKjRqYwiY,38207
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84
  gwaslab/data/reference.json,sha256=IrjwFnXjrpVUp3zYfcYClpibJE9Y-94gtrC1Aw8sXxg,12332
@@ -83,9 +88,9 @@ gwaslab/data/hapmap3_SNPs/hapmap3_db150_hg19.snplist.gz,sha256=qD9RsC5S2h6l-OdpW
83
88
  gwaslab/data/hapmap3_SNPs/hapmap3_db151_hg38.snplist.gz,sha256=Y8ZT2FIAhbhlgCJdE9qQVAiwnV_fcsPt72usBa7RSBM,10225828
84
89
  gwaslab/data/high_ld/high_ld_hla_hg19.bed.gz,sha256=R7IkssKu0L4WwkU9SrS84xCMdrkkKL0gnTNO_OKbG0Y,219
85
90
  gwaslab/data/high_ld/high_ld_hla_hg38.bed.gz,sha256=76CIU0pibDJ72Y6UY-TbIKE9gEPwTELAaIbCXyjm80Q,470
86
- gwaslab-3.5.4.dist-info/LICENSE,sha256=OXLcl0T2SZ8Pmy2_dmlvKuetivmyPd5m1q-Gyd-zaYY,35149
87
- gwaslab-3.5.4.dist-info/LICENSE_before_v3.4.39,sha256=GhLOU_1UDEKeOacYhsRN_m9u-eIuVTazSndZPeNcTZA,1066
88
- gwaslab-3.5.4.dist-info/METADATA,sha256=VcvdZjTDu1M7_ImdKHMYQXlU26IH12_EB780cwHkP1c,7758
89
- gwaslab-3.5.4.dist-info/WHEEL,sha256=PZUExdf71Ui_so67QXpySuHtCi3-J3wvF4ORK6k_S8U,91
90
- gwaslab-3.5.4.dist-info/top_level.txt,sha256=PyY6hWtrALpv2MAN3kjkIAzJNmmBTH5a2risz9KwH08,8
91
- gwaslab-3.5.4.dist-info/RECORD,,
91
+ gwaslab-3.5.6.dist-info/LICENSE,sha256=OXLcl0T2SZ8Pmy2_dmlvKuetivmyPd5m1q-Gyd-zaYY,35149
92
+ gwaslab-3.5.6.dist-info/LICENSE_before_v3.4.39,sha256=GhLOU_1UDEKeOacYhsRN_m9u-eIuVTazSndZPeNcTZA,1066
93
+ gwaslab-3.5.6.dist-info/METADATA,sha256=SQE2GcWFkajxX8jOAZ6uZEfwErn_F2GMf0jqHQVUKrY,7750
94
+ gwaslab-3.5.6.dist-info/WHEEL,sha256=jB7zZ3N9hIM9adW7qlTAyycLYW9npaWKLRzaoVcLKcM,91
95
+ gwaslab-3.5.6.dist-info/top_level.txt,sha256=PyY6hWtrALpv2MAN3kjkIAzJNmmBTH5a2risz9KwH08,8
96
+ gwaslab-3.5.6.dist-info/RECORD,,
{gwaslab-3.5.4.dist-info → gwaslab-3.5.6.dist-info}/WHEEL RENAMED
@@ -1,5 +1,5 @@
1
1
  Wheel-Version: 1.0
2
- Generator: setuptools (75.6.0)
2
+ Generator: setuptools (75.8.2)
3
3
  Root-Is-Purelib: true
4
4
  Tag: py3-none-any
5
5
 
gwaslab/vis_plot_credible sets.py DELETED
File without changes