gwaslab 3.5.7__py3-none-any.whl → 3.6.0__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
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- gwaslab/__init__.py +2 -0
- gwaslab/bd_common_data.py +1 -0
- gwaslab/bd_get_hapmap3.py +0 -1
- gwaslab/data/formatbook.json +78 -0
- gwaslab/data/reference.json +3 -1
- gwaslab/g_Sumstats.py +110 -25
- gwaslab/g_SumstatsMulti.py +287 -0
- gwaslab/g_SumstatsPair.py +101 -16
- gwaslab/g_Sumstats_polars.py +245 -0
- gwaslab/g_headers.py +12 -3
- gwaslab/g_meta.py +124 -47
- gwaslab/g_meta_update.py +48 -0
- gwaslab/g_vchange_status_polars.py +44 -0
- gwaslab/g_version.py +2 -2
- gwaslab/hm_casting.py +169 -110
- gwaslab/hm_casting_polars.py +202 -0
- gwaslab/hm_harmonize_sumstats.py +19 -8
- gwaslab/io_load_ld.py +529 -0
- gwaslab/io_preformat_input.py +11 -0
- gwaslab/io_preformat_input_polars.py +632 -0
- gwaslab/io_process_args.py +25 -1
- gwaslab/io_read_ldsc.py +34 -3
- gwaslab/io_read_pipcs.py +62 -6
- gwaslab/prscs_gigrnd.py +122 -0
- gwaslab/prscs_mcmc_gtb.py +136 -0
- gwaslab/prscs_parse_genet.py +98 -0
- gwaslab/qc_build.py +53 -0
- gwaslab/qc_check_datatype.py +10 -8
- gwaslab/qc_check_datatype_polars.py +128 -0
- gwaslab/qc_fix_sumstats.py +25 -23
- gwaslab/qc_fix_sumstats_polars.py +193 -0
- gwaslab/util_ex_calculate_ldmatrix.py +49 -19
- gwaslab/util_ex_gwascatalog.py +71 -28
- gwaslab/util_ex_infer_ancestry.py +65 -0
- gwaslab/util_ex_ldsc.py +67 -21
- gwaslab/util_ex_match_ldmatrix.py +396 -0
- gwaslab/util_ex_run_2samplemr.py +0 -2
- gwaslab/util_ex_run_ccgwas.py +155 -0
- gwaslab/util_ex_run_coloc.py +1 -1
- gwaslab/util_ex_run_hyprcoloc.py +117 -0
- gwaslab/util_ex_run_magma.py +74 -0
- gwaslab/util_ex_run_mesusie.py +155 -0
- gwaslab/util_ex_run_mtag.py +92 -0
- gwaslab/util_ex_run_prscs.py +85 -0
- gwaslab/util_ex_run_susie.py +40 -9
- gwaslab/util_in_estimate_ess.py +18 -0
- gwaslab/util_in_fill_data.py +20 -1
- gwaslab/util_in_filter_value.py +10 -5
- gwaslab/util_in_get_sig.py +71 -13
- gwaslab/util_in_meta.py +168 -4
- gwaslab/util_in_meta_polars.py +174 -0
- gwaslab/viz_aux_annotate_plot.py +13 -2
- gwaslab/viz_plot_compare_effect.py +87 -23
- gwaslab/viz_plot_credible_sets.py +55 -11
- gwaslab/viz_plot_effect.py +22 -12
- gwaslab/viz_plot_miamiplot2.py +3 -2
- gwaslab/viz_plot_mqqplot.py +94 -84
- gwaslab/viz_plot_qqplot.py +9 -7
- gwaslab/viz_plot_regional2.py +2 -1
- gwaslab/viz_plot_stackedregional.py +4 -1
- {gwaslab-3.5.7.dist-info → gwaslab-3.6.0.dist-info}/METADATA +46 -68
- gwaslab-3.6.0.dist-info/RECORD +119 -0
- {gwaslab-3.5.7.dist-info → gwaslab-3.6.0.dist-info}/WHEEL +1 -1
- gwaslab-3.5.7.dist-info/RECORD +0 -96
- {gwaslab-3.5.7.dist-info → gwaslab-3.6.0.dist-info/licenses}/LICENSE +0 -0
- {gwaslab-3.5.7.dist-info → gwaslab-3.6.0.dist-info/licenses}/LICENSE_before_v3.4.39 +0 -0
- {gwaslab-3.5.7.dist-info → gwaslab-3.6.0.dist-info}/top_level.txt +0 -0
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gwaslab/__init__.py,sha256=Lpa15i924wRu1jZ9_B2Tz5724FQkdb9O5Wg3tQPWR68,2683
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gwaslab/bd_common_data.py,sha256=jqkdKib-tc8RKyYMPy8z2KF3YwCWIr-6STMCi4xR7KY,13899
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gwaslab/bd_config.py,sha256=TP-r-DPhJD3XnRYZbw9bQHXaDIkiRgK8bG9HCt-UaLc,580
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gwaslab/bd_download.py,sha256=cDDk2C5IvjeAzvPvVYGTkI4Ss33DUtEDjGo8eAbQRvY,15663
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gwaslab/bd_get_hapmap3.py,sha256=qWTvIRZsd7F3nT9sN2NSXUsxZJRf5k4HLgJ6kN0qaUc,4107
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gwaslab/cache_manager.py,sha256=HOTnSkCOyGEPLRl90WT8D_6pAdI8d8AzenMIDGuCeWc,28113
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gwaslab/g_Log.py,sha256=C3Zv-_6c3C9ms8bgQ-ytplz22sjk7euqXYkWr9zNeAs,1573
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gwaslab/g_Phenotypes.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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gwaslab/g_Sumstats.py,sha256=l1zmEOifAZvnv7BoLzyLcTV6Yp1KX5n5HH930GQ9xlE,43502
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gwaslab/g_SumstatsMulti.py,sha256=2y8brnKAs5I9tUexQJiFwOsFLC4MyACn7IybvvXsRDU,13828
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gwaslab/g_SumstatsPair.py,sha256=PmVPGU32degDuU5RDG9igyT1sFAbEDh6alrRulUphyk,13181
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gwaslab/g_SumstatsSet.py,sha256=AiTISWPfmu8NTGa8j9Yuts8DNw1pEUENYyPoS0HXp5I,29866
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gwaslab/g_SumstatsT.py,sha256=u_DighLMnMxwTLnqm-B58pA0G6WXRj6pudPyKMVKjSU,2133
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gwaslab/g_Sumstats_polars.py,sha256=F9d8y-6SJLRibrZrvWtwE2XpxZdG3A9DqqTT8TW4sS0,8528
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gwaslab/g_Sumstats_summary.py,sha256=FECvvFXJVKaCX5dggBvvk9YvJ6AbdbcLfjltysX7wEE,6380
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gwaslab/g_headers.py,sha256=B0bTVqzf2pdUwAX1U8MoYDO7nQEKAtgVnn-9bVXsJGE,6766
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gwaslab/g_meta.py,sha256=pXtSsQfFPv2UJmOxKMmLtcsp_Ku_H73YP7PnlfMd0sg,6472
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gwaslab/g_meta_update.py,sha256=dWgz4kcq9bvsXycCjfhoYtcJHlEP4HRdYoQ8KFqMyTQ,2490
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gwaslab/g_vchange_status.py,sha256=w3zsYYOcCaI3PTeboonvkQjudzUAfVIgATzRdiPViZs,1939
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gwaslab/g_vchange_status_polars.py,sha256=kxyGQCur0ibVFBCyZghA-XNf_kLDXKK-l7VC-Om2IdA,1839
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gwaslab/g_version.py,sha256=o8J0x9TeG_k6wUFeFHrx1HQA4JK3mxYQakjlpBACIX8,1889
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gwaslab/hm_casting.py,sha256=xoq1E4Tp5VC4aLWfq9-_AfiQzb1WZAHrnZG33W4sCOE,14178
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gwaslab/hm_casting_polars.py,sha256=_3ZeMg3mRsa7vHpxObFErOledpaydhC_PxStcwlYO2c,8371
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gwaslab/hm_harmonize_sumstats.py,sha256=2MeWnWmMHpLWjUMTVqExpg_3mE1VIaBsh6Mz3ffJCMc,84761
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gwaslab/hm_rsid_to_chrpos.py,sha256=ODWREO0jPN0RAfNzL5fRzSRANfhiksOvUVPuEsFZQqA,6552
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gwaslab/io_load_ld.py,sha256=pJemMmHn5GrEbIloqGPX3tBStjkA6DVrAoerGOUBbqc,21827
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gwaslab/io_preformat_input_polars.py,sha256=HGdi6rXPQnYjTW8fMUds-uF6Lt8uElL3Er_Afv3OjTc,24767
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gwaslab/io_read_ldsc.py,sha256=9tV4AfQZmCAyiNSR9uALmXWOytWhBdT0pfMAY5Mx_QQ,13407
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gwaslab/io_to_formats.py,sha256=uAmZ4xzVoJqXGXxwTZlbppli4fPc2EshnuTJm2DC4v8,32799
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gwaslab/io_to_pickle.py,sha256=HhePU0VcaGni0HTNU0BqoRaOnrr0NOxotgY6ISdx3Ck,1833
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gwaslab/ldsc_irwls.py,sha256=83JbAMAhD0KOfpv4IJa6LgUDfQjp4XSJveTjnhCBJYQ,6142
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gwaslab/ldsc_jackknife.py,sha256=XrWHoKS_Xn9StG1I83S2vUMTertsb-GH-_gOFYUhLeU,17715
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gwaslab/ldsc_ldscore.py,sha256=ZOxMvV3PhZzLsTmkKQqjabk_9PdrCTtPhbrdrpGmRAk,14580
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gwaslab/ldsc_parse.py,sha256=MBnfgcWlV4oHp9MoDRh1mpilaHhAR15Af77hMFn4-5k,10564
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gwaslab/ldsc_regressions.py,sha256=yzbGjgNV7u-SWXNPsh9S8y9mK97Bim_Nmad9G9V18ZU,30078
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gwaslab/ldsc_sumstats.py,sha256=O0olsDxKlh1MJ1gAuEN1t40rxhajOEwOQ20ak7xoDrI,26245
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gwaslab/prscs_gigrnd.py,sha256=oKv3lN0AJjg-Vm39_qMzVZ-iux5rVWBUU1meJv4iEs8,2872
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gwaslab/prscs_mcmc_gtb.py,sha256=QdwUY0V4D1eEfgZVO_XRrnXcShkbBZcCAZgLdeXPJVI,4607
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gwaslab/prscs_parse_genet.py,sha256=N7UmyvdO--yTKvbjMNQCVucRIs4PbRGf93maGkh8PP4,3137
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gwaslab/qc_build.py,sha256=oeJqV-zbn-9FZ7SsmT4DPuYTt_IIeXw0XtmEkSzN5qA,2145
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gwaslab/qc_check_datatype.py,sha256=XuL4sg-OkdIiGaHg98JHZems0Uo-OyF5DlUTyE9gUd4,4580
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gwaslab/qc_check_datatype_polars.py,sha256=rJ1dIruxclHi37zd5xpS1ml30-200NI-FoEAVTe9_Eo,4218
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gwaslab/qc_fix_sumstats.py,sha256=7l4kjmllaX7Wfq81F2tnF4klijW42j0KaaJeNPJhTYs,98369
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gwaslab/util_abf_finemapping.py,sha256=LRcopjtkT-iXtKPAJIzR4qjPdhD7nrS_BGit4EW89FM,3054
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gwaslab/util_ex_gwascatalog.py,sha256=RZ_qIsfjONUbF3AGMp-0feTBubOEEZUufYGdvv0Sk7g,9211
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gwaslab/util_ex_infer_ancestry.py,sha256=AXLEhuJUBT6XIYjADB-envFRGIZ-misnegGdtK8SsFc,2192
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gwaslab/util_ex_ldproxyfinder.py,sha256=HadmnjEv5EvZCHR5SFSAbqxZWJryEErJftCS0WhZUbs,16898
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gwaslab-3.5.7.dist-info/METADATA,sha256=QKvLYkpRCauJ2uiVpd7xfO_w9DEKg4qsM_CiSRfcUkQ,7750
|
|
94
|
-
gwaslab-3.5.7.dist-info/WHEEL,sha256=jB7zZ3N9hIM9adW7qlTAyycLYW9npaWKLRzaoVcLKcM,91
|
|
95
|
-
gwaslab-3.5.7.dist-info/top_level.txt,sha256=PyY6hWtrALpv2MAN3kjkIAzJNmmBTH5a2risz9KwH08,8
|
|
96
|
-
gwaslab-3.5.7.dist-info/RECORD,,
|
|
File without changes
|
|
File without changes
|
|
File without changes
|