{
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  "Package": "GEInter",
  "Type": "Package",
  "Title": "Robust Gene-Environment Interaction Analysis",
  "Version": "0.3.2",
  "Authors@R": "c(person(\"Mengyun\", \"Wu\", role=c(\"aut\"), email = \"wu.mengyun@mail.shufe.edu.cn\"),\nperson(\"Xing\", \"Qin\", role=c(\"aut\",\"cre\"), email = \"qin.xing@163.sufe.edu.cn\"),\nperson(\"Shuangge\", \"Ma\", role=c(\"aut\"), email = \"shuangge.ma@yale.edu\"))",
  "Maintainer": "Xing Qin <qin.xing@163.sufe.edu.cn>",
  "Description": "Description: For the risk, progression, and response to\ntreatment of many complex diseases, it has been increasingly\nrecognized that gene-environment interactions play important\nroles beyond the main genetic and environmental effects. In\npractical interaction analyses, outliers in response variables\nand covariates are not uncommon. In addition, missingness in\nenvironmental factors is routinely encountered in\nepidemiological studies. The developed package consists of five\nrobust approaches to address the outliers problems, among which\ntwo approaches can also accommodate missingness in\nenvironmental factors. Both continuous and right censored\nresponses are considered. The proposed approaches are based on\npenalization and sparse boosting techniques for identifying\nimportant interactions, which are realized using efficient\nalgorithms. Beyond the gene-environment analysis, the developed\npackage can also be adopted to conduct analysis on interactions\nbetween other types of low-dimensional and high-dimensional\ndata. (Mengyun Wu et al (2017),\n<doi:10.1080/00949655.2018.1523411>; Mengyun Wu et al (2017),\n<doi:10.1002/gepi.22055>; Yaqing Xu et al (2018),\n<doi:10.1080/00949655.2018.1523411>; Yaqing Xu et al (2019),\n<doi:10.1016/j.ygeno.2018.07.006>; Mengyun Wu et al (2021),\n<doi:10.1093/bioinformatics/btab318>).",
  "License": "GPL-2",
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  "Packaged": {
    "Date": "2026-05-27 10:07:39 UTC",
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  "Author": "Mengyun Wu [aut], Xing Qin [aut, cre], Shuangge Ma [aut]",
  "Repository": "https://cran.r-universe.dev",
  "Date/Publication": "2022-05-19 05:50:19 UTC",
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        "G.LINC00301",
        "G.MTHFR",
        "G.PCK1",
        "G.PFKM",
        "G.PTPRC",
        "G.TESPA1",
        "G.TLL2",
        "G.TNFSF8",
        "G.TTC7B",
        "G.YIPF4",
        "G.DOC2B",
        "G.GABRA3",
        "G.ITGB7",
        "G.LTA",
        "G.NQO1",
        "G.P2RY14",
        "G.PTPN22",
        "G.RARA",
        "G.SPCS3",
        "G.UVSSA",
        "G.ABCD2",
        "G.CXCR6",
        "G.DMRTA2",
        "G.DUSP16",
        "G.GINM1",
        "G.KLRK1",
        "G.LINC00922",
        "G.MGA",
        "G.PFN2",
        "G.PIGS",
        "G.SLC20A1",
        "G.SP9",
        "G.SPACA4",
        "G.STAT5A",
        "G.TMEM185B",
        "G.USP6NL",
        "G.WDR37",
        "G.ZNF441",
        "G.AGPS",
        "G.ATXN7L2",
        "G.AXL",
        "G.BICDL1",
        "G.DARS",
        "G.IKZF2",
        "G.PRAMEF5",
        "G.PTGR1",
        "G.TPP1",
        "G.UTP6",
        "G.YTHDC2",
        "G.ADGRG5",
        "G.CD48",
        "G.EZR",
        "G.F2RL1",
        "G.FUCA1",
        "G.GAPT",
        "G.GEN1",
        "G.GMIP",
        "G.ARHGAP45",
        "G.MAP3K6",
        "G.NCR3",
        "G.NKAP",
        "G.NUDT11",
        "G.PRAMEF6",
        "G.RAB11B",
        "G.SLC16A3",
        "G.TMEM92",
        "G.TMEM199",
        "G.TTC30A",
        "G.TCEAL9",
        "G.ZNF644",
        "G.ABL2",
        "G.AHDC1",
        "G.ALG3",
        "G.BNIP3",
        "G.ERAL1",
        "G.LARGE2",
        "G.LIPE",
        "G.MCFD2",
        "G.PAOX",
        "G.QPCT",
        "G.RBM33",
        "G.RMDN3",
        "G.SMS",
        "G.PIP4P2",
        "G.ZNF473",
        "G.ANKRD29",
        "G.ANKRD44",
        "G.ARAP2",
        "G.C17ORF64",
        "G.HSP90AB1",
        "G.NBEAP1",
        "G.NOX3",
        "G.PSEN2",
        "G.SUSD1",
        "G.TAX1BP1",
        "G.ALDH2",
        "G.ARSI",
        "G.FAM241B",
        "G.CANX",
        "G.CDC27",
        "G.CELSR3",
        "G.ERP44",
        "G.EZH2",
        "G.IL1A",
        "G.KIR3DL2",
        "G.TCEAL6",
        "G.VPS33B",
        "G.ZNF354C",
        "G.ARHGEF3",
        "G.CCR4",
        "G.CYP4X1",
        "G.GOT2",
        "G.HSP90AA1",
        "G.MAP3K14",
        "G.PYHIN1",
        "G.SLC12A1",
        "G.SPANXN3",
        "G.UNC50",
        "G.ZNF141",
        "G.ZNF81",
        "G.C8ORF33",
        "G.CROCCP2",
        "G.FAM120C",
        "G.HBBP1",
        "G.HENMT1",
        "G.IL21",
        "G.IQCN",
        "G.MBNL3",
        "G.NUDT7",
        "G.PEX5L",
        "G.SAR1A",
        "G.SYNJ1",
        "G.TNFRSF13C",
        "G.TYK2",
        "G.ZNF566",
        "G.ADSL",
        "G.ARHGAP30",
        "G.KNSTRN",
        "G.MDGA2",
        "G.PPP6R3",
        "G.SH2D4A",
        "G.SLCO1B7",
        "G.YPEL1",
        "G.ZFAND1",
        "G.ZNF799",
        "G.AGA",
        "G.AHSG",
        "G.ARL2BP",
        "G.B4GALT3",
        "G.BLK",
        "G.BLNK",
        "G.CARS2",
        "G.CXCR5",
        "G.GALNTL5",
        "G.GSAP",
        "G.NPS",
        "G.PITPNB",
        "G.RANBP3",
        "G.TLCD5",
        "G.TRIM32",
        "G.ZNF134",
        "G.ZNF471",
        "G.AATF",
        "G.ARID4A",
        "G.EPB41",
        "G.GZMK",
        "G.HECTD4",
        "G.ITFG1",
        "G.KCNH6",
        "G.LINC00461",
        "G.MLLT1",
        "G.PLA2G2D",
        "G.SCGN",
        "G.SFTPA2",
        "G.SLC25A17",
        "G.TIFA",
        "G.TMEM105",
        "G.TNFRSF13B",
        "G.CBFA2T2",
        "G.EOMES",
        "G.FAM216A",
        "G.HOOK1",
        "G.KIR3DL1",
        "G.MAEL",
        "G.SF3B3",
        "G.SNORA71A",
        "G.SYT6",
        "G.WAS",
        "G.ZNF879",
        "G.ARF3",
        "G.AUP1",
        "G.C1QL1",
        "G.DDX24",
        "G.DNAJB4",
        "G.DPH6",
        "G.GNAT1",
        "G.GPR31",
        "G.MAG",
        "G.POMP",
        "G.RASSF1",
        "G.RPA2",
        "G.C3ORF70",
        "G.CFDP1",
        "G.CNR2",
        "G.DIPK1A",
        "G.INHBA",
        "G.NCF1B",
        "G.OLA1",
        "G.SFT2D1",
        "G.TCEAL3",
        "G.ZCRB1",
        "G.ANKRD40",
        "G.DOCK2",
        "G.FNBP1",
        "G.LPXN",
        "G.MYO1B",
        "G.NALCN",
        "G.NETO2",
        "G.NUP37",
        "G.ODF4",
        "G.SLC25A10",
        "G.TESK2",
        "G.ZNF625",
        "G.AMPD3",
        "G.CROCCP3",
        "G.HP1BP3",
        "G.ITM2A",
        "G.LRRC28",
        "G.MARK4",
        "G.MIR9.3HG",
        "G.PKD1",
        "G.SPG21",
        "G.STX3",
        "G.SYCP2",
        "G.USP37",
        "G.WIPF1",
        "G.ADGRF3",
        "G.C4BPB",
        "G.COL25A1",
        "G.IL2",
        "G.PRTN3",
        "G.PSEN1",
        "G.SCG5",
        "G.SELL",
        "G.SLC12A3",
        "G.SLC25A5",
        "G.TNFRSF25",
        "G.ZC3H4",
        "G.DDX18",
        "G.EIF3J",
        "G.GRAPL",
        "G.KIF7",
        "G.KLRC4",
        "G.NFE2L1",
        "G.OSTN",
        "G.PGBD2",
        "G.RSL24D1",
        "G.SEC31B",
        "G.SPTLC1",
        "G.TTC9C",
        "G.ZSCAN30",
        "G.ADGRA1",
        "G.DNAJB12",
        "G.FCRL4",
        "G.NIBAN3",
        "G.LRRC52",
        "G.MSANTD4",
        "G.MSL3",
        "G.MUL1",
        "G.N4BP3",
        "G.NUDCD1",
        "G.RAB6A",
        "G.RPL7",
        "G.RPS6KA5",
        "G.SLC25A23",
        "G.TJP3",
        "G.TMEM87B",
        "G.TNRC6C",
        "G.ZNF837",
        "G.AARS",
        "G.ANKRD13A",
        "G.ARMH1",
        "G.CCT4",
        "G.CD3G",
        "G.CXORF56",
        "G.DCANP1",
        "G.DNM2",
        "G.DRG1",
        "G.EIF3E",
        "G.FAM162B",
        "G.FGA",
        "G.HAUS3",
        "G.INHBC",
        "G.PRORP",
        "G.MYO9B",
        "G.NOSTRIN",
        "G.OTUD7A",
        "G.PPIP5K2",
        "G.PRDM2",
        "G.SHCBP1",
        "G.SLC23A1",
        "G.TWISTNB",
        "G.XPR1",
        "G.ANAPC4",
        "G.MAJIN",
        "G.DCDC2",
        "G.DOCK8",
        "G.DTHD1",
        "G.RGL4",
        "G.SEPSECS",
        "G.VAMP1",
        "G.AURKA",
        "G.CD226",
        "G.CEP120",
        "G.CNIH4",
        "G.DCTD",
        "G.GALNT2",
        "G.GP5",
        "G.KLF11",
        "G.LIF",
        "G.LTB",
        "G.PRKN",
        "G.PGAM4",
        "G.TINAGL1",
        "G.TMEM270",
        "G.WDTC1",
        "G.AKAP12",
        "G.CHRNA2",
        "G.COLGALT1",
        "G.DCTN5",
        "G.E2F4",
        "G.KDELR1",
        "G.NLRP2",
        "G.SLC38A6",
        "G.TMED2",
        "G.TMLHE",
        "G.C16ORF72",
        "G.GHRH",
        "G.GRAP2",
        "G.KLHL6",
        "G.YWHAB",
        "G.ALG2",
        "G.C2CD5",
        "G.LINC02694",
        "G.CBX5",
        "G.CXCL13",
        "G.GRB14",
        "G.NFKBID",
        "G.NOMO2",
        "G.PHF5A",
        "G.SELPLG",
        "G.TMEM225",
        "G.CD19",
        "G.CFAP44",
        "G.GLRX5",
        "G.INSC",
        "G.JAKMIP1",
        "G.JMY",
        "G.MAP3K5",
        "G.MIR99AHG",
        "G.PLXNB1",
        "G.RBP5",
        "G.ARHGAP4",
        "G.FCRL1",
        "G.IP6K1",
        "G.NEMP2",
        "G.TBCK",
        "G.VWCE",
        "G.ZFR2",
        "G.ZNF619",
        "G.ZPR1",
        "G.ANKRD28",
        "G.CPEB3",
        "G.CYTH3",
        "G.ETFA",
        "G.RIPOR1",
        "G.MPI",
        "G.SCAI",
        "G.SMARCA1",
        "G.YIPF5",
        "G.ZNF443",
        "G.ZNF491",
        "G.LXN",
        "G.PPFIA3",
        "G.SBF1",
        "G.TNFRSF4",
        "G.DCBLD1",
        "G.DDX10",
        "G.FAM234B",
        "G.GNPDA1",
        "G.LINC00926",
        "G.MMGT1",
        "G.PTCRA",
        "G.ALB",
        "G.DDX52",
        "G.INKA1",
        "G.LINC00341",
        "G.PLCB2",
        "G.POLD2",
        "G.PPIL1",
        "G.SLC18B1",
        "G.ACAT1",
        "G.B4GALNT1",
        "G.CDC42EP3",
        "G.CPVL",
        "G.DKK1",
        "G.IRF4",
        "G.PER3",
        "G.PIP5K1A",
        "G.SPOCK2",
        "G.TMEM144",
        "G.TUBA4B",
        "G.BTK",
        "G.FCRL6",
        "G.GOLGA6C",
        "G.KPNA3",
        "G.MRPL45",
        "G.SRPX",
        "G.TP73",
        "G.EMC8",
        "G.FAM107B",
        "G.RMST",
        "G.SURF4",
        "G.CHRNA5",
        "G.CXCR4",
        "G.DIP2A",
        "G.MS4A1",
        "G.PDCD1",
        "G.TCEANC2",
        "G.CASP2",
        "G.CENPBD1",
        "G.INTS6L",
        "G.ECD",
        "G.FIGN",
        "G.PBRM1",
        "G.APCDD1L",
        "G.C7ORF25",
        "G.CD244",
        "G.GEMIN2",
        "G.PCGF3",
        "G.SFTPA1",
        "G.SHMT1",
        "G.ARF1",
        "G.BFSP2",
        "G.HVCN1",
        "G.XPNPEP3",
        "G.ZNF678",
        "G.ABCF1",
        "G.ARHGAP25",
        "G.CSAD",
        "G.DNMT1",
        "G.FKBP14",
        "G.GOLGA5",
        "G.GUCY1B1",
        "G.MAGT1",
        "G.SLC25A51",
        "G.TMEM14B",
        "G.ZNF445",
        "G.CCNE2",
        "G.DOCK10",
        "G.GPN1",
        "G.KIF24",
        "G.PNPLA4",
        "G.SPN",
        "G.ZNF41",
        "G.ZNF697",
        "G.ATP4A",
        "G.OSTC",
        "G.SLC5A12",
        "G.USP1",
        "G.C21ORF91",
        "G.DKK3",
        "G.GPR55",
        "G.INSR",
        "G.LAMTOR1",
        "G.RBBP9",
        "G.TCP11",
        "G.ZNF37BP",
        "G.ZNF562",
        "G.HAX1",
        "G.PCF11",
        "G.VSTM4",
        "G.ZNF157",
        "G.C17ORF107",
        "G.CCDC97",
        "G.CYP4A11",
        "G.DCST2",
        "G.ERBB3",
        "G.GNA12",
        "G.KCNS2",
        "G.LPIN2",
        "G.MROH7",
        "G.MYEOV",
        "G.TIA1",
        "G.ZNF212",
        "G.KYAT3",
        "G.CD79B",
        "G.GRAMD4",
        "G.HAUS6",
        "G.KIAA1191",
        "G.PFKP",
        "G.SH3BP5",
        "G.SLA2",
        "G.SMCHD1",
        "G.ANGPTL3",
        "G.BANK1",
        "G.COPS2",
        "G.IRAK1",
        "G.LRRC69",
        "G.MAGEA4",
        "G.MINPP1",
        "G.MMP19",
        "G.PSD4",
        "G.SLC35G1",
        "G.SOX30",
        "G.TCAM1P",
        "G.CELF3",
        "G.DPY19L3",
        "G.FOXRED2",
        "G.FUBP1",
        "G.HLF",
        "G.RAB6C",
        "G.VDAC1",
        "G.EVI2B",
        "G.FUNDC2",
        "G.GUSBP2",
        "G.JCHAIN",
        "G.MAST3",
        "G.MOXD1",
        "G.TMEM106B",
        "G.TMEM177",
        "G.ACTB",
        "G.BMS1",
        "G.CALM2",
        "G.GOLGA2P5",
        "G.GPR180",
        "G.LYL1",
        "G.MPO",
        "G.NRSN2",
        "G.RDH11",
        "G.SOX1",
        "G.STK26",
        "G.TPM3",
        "G.CDC42EP4",
        "G.CTTN",
        "G.LIG1",
        "G.LONP2",
        "G.RASSF2",
        "G.SESN1",
        "G.VPS26A",
        "G.ZNF497",
        "G.AZIN1",
        "G.EVA1C",
        "G.KTN1",
        "G.LCNL1",
        "G.MAU2",
        "G.NCF1",
        "G.PAQR8",
        "G.PTPN13",
        "G.SLA",
        "G.TMEM97",
        "G.TXNRD1",
        "G.ADGRE1",
        "G.CDS2",
        "G.DTX1",
        "G.FAM222B",
        "G.G2E3",
        "G.GYPC",
        "G.IPO7",
        "G.LINC00113",
        "G.PIGP",
        "G.PLK1",
        "G.TEX37",
        "G.ZNF501",
        "G.BCL2",
        "G.BCL2L11",
        "G.C17ORF102",
        "G.CYB5RL",
        "G.E2F8",
        "G.EPB41L4A",
        "G.GALM",
        "G.GGA2",
        "G.GPN3",
        "G.IST1",
        "G.PCAT4",
        "G.PNPLA5",
        "G.PSMD12",
        "G.RCSD1",
        "G.SFRP5",
        "G.SPRYD7",
        "G.ATP6AP1",
        "G.CD79A",
        "G.CGNL1",
        "G.CMSS1",
        "G.FARP2",
        "G.LRMP",
        "G.NDUFB5",
        "G.RPN2",
        "G.SEMA4D",
        "G.SH3BP5L",
        "G.SRXN1",
        "G.TARS",
        "G.ZNF37A",
        "G.AP2M1",
        "G.APOA2",
        "G.ASCC1",
        "G.C22ORF46",
        "G.MCTS1",
        "G.SLC66A1L",
        "G.SLC15A4",
        "G.SNORA71D",
        "G.STK11",
        "G.CARD8",
        "G.CHAF1A",
        "G.DDX19B",
        "G.FAM86C1",
        "G.HIVEP1",
        "G.PWWP3B",
        "G.PREX1",
        "G.SLC2A9",
        "G.SYNGR3",
        "G.UBAC2",
        "G.CCNK",
        "G.GHITM",
        "G.HACD1",
        "G.LAX1",
        "G.NLRP1",
        "G.NUP42",
        "G.PLSCR4",
        "G.TRAPPC10",
        "G.CCNC",
        "G.G6PD",
        "G.BICRA",
        "G.MASP1",
        "G.PDX1",
        "G.PI4K2B",
        "G.SPAG11B",
        "G.UBN2",
        "G.ZNF846",
        "G.FRMD5",
        "G.BEX3",
        "G.PDCL2",
        "G.SLC39A1",
        "G.SNX20",
        "G.TTC21A",
        "G.ZFP2",
        "G.ANAPC10",
        "G.CCDC149",
        "G.COL28A1",
        "G.FUBP3",
        "G.MYCN",
        "G.RSL1D1",
        "G.FAM214A",
        "G.LGALS1",
        "G.MME",
        "G.MSC",
        "G.NSMCE3",
        "G.OR6C3",
        "G.CDKN2C",
        "G.ESR1",
        "G.HGSNAT",
        "G.KPNA2",
        "G.RNF19A",
        "G.TBX21",
        "G.BCAM",
        "G.DNAJC12",
        "G.H2BFM",
        "G.HNRNPC",
        "G.KPNA4",
        "G.LIME1",
        "G.MOBP",
        "G.MZF1",
        "G.NPTX1",
        "G.PCM1",
        "G.PNPLA6",
        "G.SENP2",
        "G.CTCFL",
        "G.IFT20",
        "G.RSPO1",
        "G.DEFA1B",
        "G.KIAA1522",
        "G.MORF4L1",
        "G.NIFK",
        "G.PGK2",
        "G.PPP1R3E",
        "G.TBCE",
        "G.ZNF767P",
        "G.BMF",
        "G.CAPN10",
        "G.CCDC88B",
        "G.DGKG",
        "G.GIMAP6",
        "G.HACD3",
        "G.ME1",
        "G.PCBP2",
        "G.PRDX6",
        "G.TMEM150C",
        "G.TRMT44",
        "G.ZSCAN22",
        "G.BAG2",
        "G.C1ORF43",
        "G.CCDC96",
        "G.CD7",
        "G.COX11",
        "G.MAPK9",
        "G.MOAP1",
        "G.OSGIN2",
        "G.SLC51B",
        "G.ACOX3",
        "G.DPYSL2",
        "G.GIMAP1",
        "G.GRIN2C",
        "G.HSD17B12",
        "G.IKZF4",
        "G.ACER3",
        "G.PCARE",
        "G.DNAJC15",
        "G.EHF",
        "G.GAPDHS",
        "G.LIN54",
        "G.NAT8L",
        "G.PCDHA10",
        "G.STX1A",
        "G.TIFAB",
        "G.UBXN11",
        "G.FAM177B",
        "G.LGALS2",
        "G.MAPK11",
        "G.TRIM35",
        "G.ZBTB1",
        "G.ZNF100",
        "G.ZNF324B",
        "G.ZNF667",
        "G.FAM120A",
        "G.RTL8A",
        "G.GUCA2A",
        "G.IL34",
        "G.MEI1",
        "G.RINL",
        "G.ABCA7",
        "G.AKR1C4",
        "G.BCAR3",
        "G.GLYCTK",
        "G.MAGEF1",
        "G.PDE3B",
        "G.TMEM230",
        "G.TSSK6",
        "G.ZNF80",
        "G.CTC1",
        "G.HSPD1",
        "G.INTS10",
        "G.ITPRIPL1",
        "G.RPE",
        "G.TSPAN31",
        "G.CALML5",
        "G.GYG1",
        "G.LINC00473",
        "G.WWC2",
        "G.BIN2",
        "G.CORO1C",
        "G.FAM83E",
        "G.RHOH",
        "G.SULT6B1",
        "G.CHMP7",
        "G.EBLN2",
        "G.JKAMP",
        "G.KL",
        "G.KLB",
        "G.KLRC3",
        "G.NISCH",
        "G.NUP93",
        "G.PIP5K1B",
        "G.PLD4",
        "G.PTPN7",
        "G.RAF1",
        "G.ZNF335",
        "G.ZNF740",
        "G.ASS1",
        "G.AVPR2",
        "G.C11ORF42",
        "G.CCDC157",
        "G.CHAC2",
        "G.CROCC",
        "G.CST7",
        "G.CTSW",
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      "title": "A matrix containing the simulated data for 'RobSBoosting' and 'Miss.boosting' methods",
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    {
      "page": "AR",
      "title": "The covariance matrix with an autoregressive (AR) structure among variables",
      "topics": [
        "AR"
      ]
    },
    {
      "page": "Augmented.data",
      "title": "Accommodating missingness in environmental measurements in gene-environment interaction analysis",
      "topics": [
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      "page": "bic.BLMCP",
      "title": "BIC for BLMCP",
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      "page": "bic.PTReg",
      "title": "BIC for PTReg",
      "topics": [
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    {
      "page": "BLMCP",
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      "page": "coef.bic.BLMCP",
      "title": "Extract coefficients from a \"bic.BLMCP\" object",
      "topics": [
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      "page": "coef.bic.PTReg",
      "title": "Extract coefficients from a \"bic.PTReg\" object",
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