0a2c7bda932b4f51efd15eb6e6910524 *DESCRIPTION
1318ee125a27c7e7d59cb4792ab24bf0 *NAMESPACE
6e33a32fd2ec74c96df3b448569ae9eb *NEWS.md
0401125f0e8d60c520ccea03a1aa5d82 *R/CV_partition.R
4133e5bce270504c2b7b96ae414c4cb6 *R/IBD.mppData.R
2dbe6a9ec37a618fe7510ee1259cc684 *R/IBS.mppData.R
25051643263abcadfd243e1a1e5d6d5a *R/IncMat_QTL_MAF.R
abd50b80cb455e9a52df6c969c23e8d8 *R/IncMat_cross.R
22357929829c2f0458105c5d59489142 *R/IncMat_parent.R
f746c6c76d84af64403dfe61b507ed1a *R/IncMat_sum0_const.R
e2cc9e45d56a6996fca2f00de3e6fc6e *R/MM_QTL.R
f41196e6a0610b64a0bb164ce3cfd455 *R/MM_comp.R
c858fa1ac62e473c6fa4c689b4e3242a *R/MQE_BackElim.R
c0bb81d1380f5e19208267dfffb88c3b *R/MQE_CIM.R
a5c433de6d2ef011fe684aab5fe747c9 *R/MQE_CIM_clu.R
9b5974de35bdebaaa7abce5372d23af0 *R/MQE_R2.R
76d3e9c4cdd6182df59ad4d3509338ac *R/MQE_forward.R
91a0ad83aa7e858a1d3a2d7148c97198 *R/MQE_genEffects.R
604d944ca673fabd9e1931db6ff03804 *R/MQE_plot.R
c5116ca42a7c256ea1551278b1b5032b *R/MQE_proc.R
9b4e78b67b594b7c20bf3f5c74dd4c0a *R/QC.mppData.R
f573fdd2fb33901ddd8cd34f475ffe55 *R/QC_GenotypingError.R
40b7c2209cca4aea9ce71ffd0549f519 *R/QC_MAF.R
d240d9ede48a64be09d3848cc5903796 *R/QC_hetero.R
aa0356a95e59b65b7c480be2c3f5ce3c *R/QC_matchMarker.R
ee2e8d5a3b432c24f7df77220800c121 *R/QC_minCrSize.R
98b787708ba6524561480c4db69205f3 *R/QC_missing.R
e402b60c7f810b34671ffc26603ca0d8 *R/QC_tagMAFCr.R
247980f379c2b0896d64574b1e123aae *R/QTLModelBack.R
ebdb60a99a032fa8af3e2eecb801c594 *R/QTLModelCIM.R
4219e507d050c559acda71eddbbd199a *R/QTLModelCIM_MQE.R
4a41dfcfd132228469790ba41d9a4ec6 *R/QTLModelPerm.R
0133e807ef31238827d8f95831757d08 *R/QTLModelQeff.R
94fa0fc21a3afccf40f90b54ac7a0876 *R/QTLModelSIM.R
465b7c0a13666a68b845f3b690e4aae3 *R/QTL_CI.R
2c544264121529045197d2679afd37f3 *R/QTL_R2.R
6b3a6202f5194fe84c24f6dd6afaa3fa *R/QTL_R2_GE.R
8b6a803a228c42a25767746361fb437d *R/QTL_effect_GE.R
a084aa99485466d21a808df75f63c880 *R/QTL_effect_QxEC.R
92cf52b9458bcb82a5dd21bd5144b64a *R/QTL_effect_main_QxE.R
7ab1c56353607c82b23f3fc81bbed1e0 *R/QTL_forward.R
968a4f2d1cc6e91fdc845db8a80a05f5 *R/QTL_gen_effects.R
6239c21448b6326dbe993095baf520ec *R/QTL_pred_R2.R
1aa2ba0b04741f6b60345a16139b212b *R/QTL_pval.R
672cfa531ee58997ab97ab909fc75f7b *R/QTL_pval_mix.R
5325421ed2ead9cea217bb06f8c7909d *R/QTL_report.R
d89cfb37e200b565d4ea2ed26e791a09 *R/QTL_report_GE.R
16116198f5b4b54a70215fbd4446d954 *R/QTL_select.R
2fe7eddd0697070bc2c2c4f96aa88898 *R/Qeff_res_processing.R
498f7d2f09922bc573948e95c5eef417 *R/Qeff_res_processing_MQE.R
358cdb07f4fe6d5bf12b713b218b46c1 *R/Qprof_process.R
bb9f48d2ab2818282ae5506309c20f5a *R/R2_lin.R
0b523ed8e8a5bb8603a5e63b826f9048 *R/R2_lin_GE.R
8ae64ee9b4a2b59ee01a24410b0b7e23 *R/R2_pred.R
731d81b734a6a0ba729eb55e404795a1 *R/W_QTL.R
06ab4ac17b8db721dd8d1f53c03789f1 *R/W_test_Qpar_GxE.R
ee80d83a08349c959a2d7044b4ac944f *R/W_test_Qpar_main.R
34d400900d186aa371f669b5c71aaf9d *R/check.MQE.R
5d424842410fcf61e52043c4480d05b0 *R/check.cr.ABH.R
1df51d9b72b94ae86f0c24f120b02980 *R/check.inf.R
8b3b08538e8dc5f5ed37c8770abe6c33 *R/check.model.comp.R
7544baa76b1b705d7bba7ad82fbd7f89 *R/check.mpp.cv.R
88da17754cdc76ef809d063f27af50d7 *R/check.mpp.proc.R
6da2fa1d4898e70d3ae6ce0eb5d90d16 *R/check_IBD.R
d8b35984f5f93c3359e1ec5931dab2d2 *R/check_IBS.R
f3755c95e799302ba4159f49de29cbe3 *R/check_QC2.R
346a1ca47f23a261541b2f2796f3b725 *R/check_format_class.R
5a7bb87d5c2a898dc6d80f516ad1e747 *R/check_mod_mppGE.R
8a059112af8b601e86f31f735f975b8d *R/check_ref_par.R
50f1e6de6da88d7905577437a8ecf76e *R/cof_mat_reduce.R
f5918b59a7fd87f24c21e9010a3e2af6 *R/color.code.R
7898761be48e04ca5ed9f51ffe783664 *R/create.mppData.R
629a62eb7eb412b614e939823844b917 *R/cross_ABH.R
a13fc58fbf36b2fa9c17583a59fbcd03 *R/cross_ABH_het.R
11d97f37ca661a4db4705ab267d28756 *R/design_connectectivity.R
ccdaa2eaa07516a96d49df48c82ab45a *R/determine_Qmain_QxE_sign.R
d7ecbe0b5ab0e04e601d784992c30a68 *R/form_QTLxEC_mat.R
cd7cee50a60e0ad6c3c387b0050d2719 *R/formula_backward.R
3dca94c877dd7e96336bfac66bec3d40 *R/geno_012.R
a412ad86425cfd1b67a058eea0b48346 *R/getVCOV.R
6b1618dc8b538b77f2fe73b50adfa367 *R/inc_mat_QTL.R
5e76df2b1cc7cc0046471b58d0b73cb7 *R/lme_comp.R
4dedca07637b6ed15001f8c785a9a163 *R/mdf_par_name.R
44943a7b281b850af168ddc6aa66ac0b *R/mppData_add_pheno.R
557a72da39a052ff415453f627903d8f *R/mppData_mdf_pheno.R
531ccdb5dd714dfc31429ef1d9af9035 *R/mppGE_CIM.R
4c9144affba8c76cbd315308ccba2207 *R/mppGE_SIM.R
20c2c9d688bea90d8996de6cb9232640 *R/mppGE_proc.R
9688ba4c0999795dd06e3c9580e8c266 *R/mpp_CIM.R
42b68df0c853eb58d1b727a2906f7f43 *R/mpp_CIM_clu.R
9e42f522383d6ac721f7b15bf4841eb4 *R/mpp_CV.R
2f0d50f6611c8ec23946f664df05ef27 *R/mpp_SIM.R
99de43f5aeaaeb03197427ebecf257d6 *R/mpp_SIM_clu.R
398b22729f299021edd35a986b1c4fb4 *R/mpp_back_elim.R
b17aa97fec3f3079f6900907f06ef8a5 *R/mpp_forward.R
df8de9b1fdd0cd94529225ee0a782551 *R/mpp_perm.R
4e9310d15f25d96eec1f691529199756 *R/mpp_proc.R
76c8b033433f4284ed91288359d02c1e *R/parent_cluster.mppData.R
4f9453aa4f07159958b06aa2b4c56566 *R/parent_clusterCheck.R
195e52a842dc0d614db433ed76c7a153 *R/plot.QTLprof.R
08052a45ad52b1e1a42ceb20b5a7a4ae *R/plot_CV.R
b2c9339e6619424795498bd79b89608b *R/plot_QTLxEC.R
6e13a348bd2d041ff701120e5af6fda9 *R/plot_allele_eff_GE.R
4838f4a58fa1677e8f564129d5842d15 *R/print.summary.QR2Res.R
bd89741e42440bb199c90e59199d71f3 *R/print.summary.QeffRes.R
dd47479f2d60e26914624702652f261d *R/print.summary.mppData.R
4a808ae38ac28881ce11273b11c20a2d *R/reference.count.R
476a0efc36d4d7882fab697777ded6f3 *R/remove_singularities.R
ea15012d33d1dc525a96be09ccd5987b *R/sign.star.R
f921f583a3857e72ce743ea29b1fffa3 *R/subset.mppData.R
4ccfbe4a40aa909bc320742905f180ec *R/summary.QR2Res.R
046c8532f69ea696ed3f22b50e2118a6 *R/summary.QeffRes.R
53e2493695a4cb1a28b3691c74b56b0d *R/summary.mppData.R
9c98b7ae699be80f118b9d2b00f22ee6 *README.md
08296222155b533162ec40ef13d07646 *build/vignette.rds
9b7d7f8f1ea8d8b62468cbc2ac6a3120 *data/USNAM_geno.rda
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ab29777d45920fec562eb5101d08aa39 *data/USNAM_pheno.rda
8df794f3486ccac98aa5b6f381c6adaf *data/datalist
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ac8613dad60f0cafe51588c9990f832c *data/mppData_GE.rda
ddccfc91dc8f861cdbcd8e8ca5c3e0e7 *data/mppData_init.rda
151bc44ca5b2d2120bd3aca18bef1a46 *data/par_clu.rda
ef96d6693eb6a6b5c5851da58e3370b4 *inst/CITATION
c39753bae8227db77e3fe35fb5b80a5c *inst/doc/MPP_ME_QTL_detect.R
70c55e1b106fbf3cf1779c06c8ea3dd7 *inst/doc/MPP_ME_QTL_detect.Rmd
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ca6a558cb1e4cf722318082f1ce7e3cb *inst/doc/mppR_gen_vignette.R
ca89bf9d58afcf6aad1c265d0255293a *inst/doc/mppR_gen_vignette.Rmd
9d9cce1639565565ec3d031d137c144b *inst/doc/mppR_gen_vignette.html
ec358f2da11ba4e60ab156ff4c409314 *man/CV_partition.Rd
4d5ed1e1cd7b5b705e7a3a18866a0389 *man/IBD.mppData.Rd
29b91a60f58eb4229ab4e73a5d86eb3b *man/IBS.mppData.Rd
35102495f3e34636de96a8a475b4a51d *man/MQE_gen_effects.Rd
82073ffc83c7d79e53831bd9c131d257 *man/MQE_proc.Rd
ad5103e9e74d0f4c5163e54973c21710 *man/QC.mppData.Rd
da7905ade954bf35a1e53141e9561bff *man/QTL_R2.Rd
961d00677e29eec78eb86d3decbc21d2 *man/QTL_R2_GE.Rd
cd6e5bde7cabc6e4459276b9d992702a *man/QTL_effect_GE.Rd
94e6e03a320460aebcad403e6e2dfffe *man/QTL_effect_QxEC.Rd
c4de3cf58d83fbc92737798b8640e899 *man/QTL_effect_main_QxE.Rd
142b859b152b8eb7d5a2a2c630c5ca08 *man/QTL_forward.Rd
e6cc53594a2211d88670075da9622172 *man/QTL_gen_effects.Rd
3de3d79596e98671f693400712ccccdc *man/QTL_pred_R2.Rd
5942478c07125b274315ff57e1d8847f *man/QTL_select.Rd
384a7e4761072ca24e6d31cc23d97f4a *man/USNAM_geno.Rd
1339f5c5040580e489899c3fbe907695 *man/USNAM_map.Rd
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ecf968ef017007721e61ae02cf9fa9d2 *man/create.mppData.Rd
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0d4206e33f5871d283d54ecda6f9c044 *man/mppData.Rd
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398a0a3388e7ead90735f99a41ab232f *man/mppData_add_pheno.Rd
41f7a700b3c98dbd98b294fee7164d58 *man/mppData_init.Rd
89b89d2a364d14d713f0b740925b31f7 *man/mppData_mdf_pheno.Rd
2f97067f9c55a9c36034d1773acd5953 *man/mppGE_CIM.Rd
d1ead6236c8a0883c62f1e79cd020ea5 *man/mppGE_SIM.Rd
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6ef0e9fb8c6c8718df0fae217af8e6d0 *man/mpp_CIM.Rd
a4b1b7002891f50fd086470d24647aba *man/mpp_CV.Rd
02f626ffca335f50288d06c7e938f98c *man/mpp_SIM.Rd
505b9711d160cce52b7d600c39906bb6 *man/mpp_back_elim.Rd
8bfca6dfbe82f42e4c2f78a07fc1ef5f *man/mpp_forward.Rd
7b3a3a0e3fd92d8e2ebc3faa10f45e64 *man/mpp_perm.Rd
94572b93fe64032389873efe3c1e4bf4 *man/mpp_proc.Rd
5051003f93d1315107c4efa59e3c8635 *man/par_clu.Rd
2908b59abc5e858d8c0541f52ffd2c15 *man/parent_cluster.mppData.Rd
ae44e21bdc1d4f72a7e9da7cfbd5e25a *man/plot.QTLprof.Rd
01a6ddd5d47f70e91e7e296c5f86ce6f *man/plot_QTLxEC.Rd
2ff56d43fbb71176742a82eab6b02441 *man/plot_allele_eff_GE.Rd
1bc1219b2294247aab177b8c03380e67 *man/print.summary.QR2Res.Rd
fc52bdbfa6d1dc77589121a6162e57de *man/print.summary.QeffRes.Rd
0863bea1e8a94a1ae0e34da49ac9a498 *man/print.summary.mppData.Rd
260e9ac19ee05f44ffb6275216634adb *man/subset.mppData.Rd
b5cfc72e591d5e2f980e95de7de23104 *man/summary.QR2Res.Rd
562d468bbc8f65be522772c9504a399b *man/summary.QeffRes.Rd
d7326c649ac6237fd0975e68258270f7 *man/summary.mppData.Rd
3579841848386581448c11b1ed37529a *tests/testthat.R
13e3f7569f2d8b82f41c765fd7e2126c *tests/testthat/test_CIM.R
4620a118d2f9d5ab5a533321654477e5 *tests/testthat/test_MQE_proc.R
3e6afb0e8daed7eefe1344ea74ef1618 *tests/testthat/test_QTL_R2.R
8e192ab066b1f6037c1027742bf05d90 *tests/testthat/test_QTL_gen_effects.R
d4d21aff5e7840f23c941f32007f3f90 *tests/testthat/test_SIM.R
47680f8b266a3de20ab090f07afae5ba *tests/testthat/test_mpp_back_elim.R
6895047df8a554c7ec923154e729f094 *tests/testthat/test_mpp_proc.R
70c55e1b106fbf3cf1779c06c8ea3dd7 *vignettes/MPP_ME_QTL_detect.Rmd
82968d778c5cdd7e6895afd5bce780cd *vignettes/bibliography.bib
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ca89bf9d58afcf6aad1c265d0255293a *vignettes/mppR_gen_vignette.Rmd
b54abacb5594d11d6214e77910c511b3 *vignettes/workflow.JPG
