ae403166f23e16f536776e8444f84b17 *DESCRIPTION
a16d2d9f4ed0abb915e70e005f80c2b6 *NAMESPACE
92bbe8308a8c31d7b64b0ae62986c1b7 *NEWS
4dceb81c85f5d63205adb6c5f669de01 *R/AM.R
4715c7ad943f6d059dc6619287e7e9a3 *R/FPR4AM.R
786de2384479a977d552cb1720056c5d *R/GenomicRel.R
ad24efa95193b12852cbcd789674d1b2 *R/OpenGUI.R
86b3bc027f9d1e6480f91221375d30d2 *R/RcppExports.R
3323df818a60340ee6e015b914e77e9a *R/ReadMap.R
d93414a0152adb42a6512d3513d25dd3 *R/ReadMarkerBin.R
def1778839100331f6477e2c3832e286 *R/ReadPheno.R
b23c3b624dde2cace37f71203eecabff *R/ReadVCF.R
0dfae37175c39b06bc319f0dbac2fdc2 *R/ReadZmat.R
6d68f63205120dc7527b533b4c98bdcb *R/ReshapeM.R
80d1ce1fe595134e7365483cbf91bcbb *R/build_design_matrix.R
93061ea8253dae52a375ce64438e8c30 *R/calcMMt.R
4972efe67b21ab850f476208fd282e87 *R/calcVC.R
945ea0be037899518b902c2b6b9d8813 *R/calc_extBIC.R
57a5668bec88d4284ab519cfb3f744a1 *R/calc_extBIC_MLE.R
017d61f79a7634c26c09354ef7c2410e *R/calculateH.R
9ce56457c98cd5c86273004bc9bf87ec *R/calculateMMt.R
b5c6ccc2ebceed5d981a0ff0c2e416cf *R/calculateMMt_sqrt_and_sqrtinv.R
17de2b239f194fb07920244aaa87707c *R/calculateP.R
89b2c3136b7fd94a0dd3683839789bc0 *R/calculate_a_and_vara.R
538b2b95520c205868d8454106f4ae92 *R/calculate_a_and_vara_batch.R
9e9c8c561140c298e1eec25c51ed07b2 *R/calculate_reduced_a.R
72f322988c0ba274a6674b9d82f76431 *R/calculate_reduced_a_batch.R
6de9c68b32e32871d6df1821484aeabe *R/calculate_reduced_vara.R
5a7b8b62a62fffc22310efc9fd111398 *R/check_for_NA_in_trait.R
3bc04a6fa2898e64cf8c22a71e3ac948 *R/check_inputs.R
1ea5453ae3477c1851c3b6a88dd03f73 *R/check_inputs_mlam.R
a52838b081ac2713a7cad4ad45405858 *R/constructX.R
dd139a44a5555c4586394922c4df925e *R/create_ascii.R
25304ef74131b05ff44c45e9612b4088 *R/create_bin.R
3968f4189787e66f89d880353b6c3b69 *R/create_vcf_bin.R
ad320ad04dc03eb0236e7c96e6d9cb12 *R/doquiet.R
bf183045bdbc6a22b830e5aa599adfc1 *R/emma_MLE.R
68f7a921a0e4245c9b2a93f735bbe897 *R/emma_REMLE.R
e655781fe3299c9ece372d89c0a0bc76 *R/emma_delta_ML_LL_w_Z.R
bac68e2636157ffe496be4ec7483bfeb *R/emma_delta_ML_LL_wo_Z.R
46a8b12478f0ce4a289d07dea2ee8865 *R/emma_delta_ML_dLL_w_Z.R
69416a14961e606eddad62a79049c5f1 *R/emma_delta_REML_LL_w_Z.R
7e9ab3212232d74d7fc8450bb5e2aac6 *R/emma_delta_REML_dLL_w_Z.R
33fe9686b1d8c380e840c59f8c68a798 *R/emma_eigen_L_w_Z.R
bbeb105cfa65e47ee3edd3bf952c8d2b *R/emma_eigen_L_wo_Z.R
31054f4c16fd64504101adde3b1aaaaf *R/emma_eigen_R_w_Z.R
d1ff7f49773e72ad5dbf2d617846544f *R/emma_eigen_R_wo_Z.R
63b2f4985bb5e7447f74e9ef1a9e5995 *R/emma_misc.R
ab8292221ccf525a089bfcff65ad4b8c *R/extract_geno.R
5f5175b7a35c7a709819ced9609ddbfc *R/extract_geno_Mt.R
653e6dd19e2e10196625362e1ff72b06 *R/find_qtl.R
02a885cb9a29c3392acab7358dccff6f *R/form_results.R
15edcf78077d791a773974163555d973 *R/fullpath.R
c36cea9967480b5b46d1bf0582216e2d *R/onAttach.R
53333f28ee40c6eb804eca43a7fc57a8 *R/print_final.R
c5ce4d28a1bc7b4fe4a0069b457e403b *R/print_header.R
16e2494b7ed744fd836447d8889295a8 *R/print_results.R
b8b0be03fa4d22e1ee99a837cf841fdd *R/print_title.R
096c2c56ebfe21a3f2f4b3f28df370d5 *R/summary_am.R
2b34e16b4175aeb3f67b5c37665b427a *inst/CITATION
c70ebf8026afb52ff863eaa983dde1ab *inst/extdata/Z.txt
7ace8998cb38736fa6b1881fb6ed8652 *inst/extdata/geno.ped
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5cdd2cd9c95803d2564a563fdb81ef10 *inst/extdata/geno.vcf
6df7d6ab431e134a1c8f332053e6f289 *inst/extdata/map.txt
381616b1bc74db4c92880a0729185b3d *inst/extdata/pheno.txt
3adc99c1b4986abcff7f9705cd9c2aad *inst/shiny_app/app.R
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6598c832135f49d58bdbc86304b1cb3e *man/AM.Rd
0f496b2cbddd5c9423fdfd7198d6e376 *man/Eagle-package.Rd
7ef8db60cef15509cdcd4d4b99358fef *man/FPR4AM.Rd
a495ea9451139c608db2c5f5c82c48d7 *man/OpenGUI.Rd
6c4ed8102849071ee966382532796e70 *man/ReadMap.Rd
3fc16929be6fa4f8ae598ddeff44e3e5 *man/ReadMarker.Rd
4fa308ed0e3010d174434b36386f8aad *man/ReadPheno.Rd
79c277ba62f47b74ef86931b27d172ad *man/ReadZmat.Rd
1b61816bf72d0eefb3a1fe0cbbda2449 *man/SummaryAM.Rd
52f5d9d15bf451419c09568293f73a87 *src/CreateASCIInospace.cpp
9177c3feafe6a6e3094805950a043211 *src/CreateASCIInospace_PLINK.cpp
00d1801cba05595fecb8b22fc214517d *src/CreateBIN.cpp
d47d23b727ad656eb56cd53dc7c360a4 *src/CreateBIN_PLINK.cpp
67bb2ca24873a9725ed76b0af8eb70c9 *src/Eagle.h
eb022d6e7db19a210bf7fd23100e16b8 *src/Makevars
c745f7d2fb185c02d4da2b54f7327c1f *src/Makevars.win
295020e24b0abbaf9b86a8ccb1e32c2a *src/RcppExports.cpp
b2acae17d7233cc4a4cfe7dee39f4084 *src/ReadBlock.cpp
a190d52e10dd466f7573d249b18275ab *src/ReadBlockBin.cpp
32230438b3cc8d268242d9937078d059 *src/ReshapeM_rcpp.cpp
f3ea52f6dbb1686cd16605d5bbd2eaae *src/calculateMMt_rcpp.cpp
37f3e00710a798e6eb621647ac2adba3 *src/calculate_a_and_vara_batch_rcpp.cpp
ea40d8d67b1613cc1ecae04c6e4b90d3 *src/calculate_a_and_vara_rcpp.cpp
803738f3d927caf16da611845adc17c4 *src/calculate_reduced_a_rcpp.cpp
73e6db323679d903f185aebd22023e69 *src/createM_ASCII_rcpp.cpp
0753f0fe9ff2ac2700af1f9050307977 *src/createM_ASCII_rcpp.h
cc19ffb063021928eb0462ba0641c540 *src/createM_BIN_rcpp.cpp
5278cad45ad55e4363e104dacbe7f7cc *src/createM_BIN_rcpp.h
1bdeda437ea4865236f54ff1ec192eeb *src/createMt_ASCII_rcpp.cpp
5e22dddc80cb79acef9b540431270796 *src/createMt_BIN_rcpp.cpp
764e5227d92b09b48b4e7eb1069ae30d *src/create_vcf_BIN_rcpp.cpp
27dfb41f7e6547a025dda086794f818c *src/extract_geno_Mt_rcpp.cpp
e13d85d9d365aed38e35901e1bd01ba6 *src/extract_geno_rcpp.cpp
937740e85e393ff1394b19099e314ec0 *src/fasttimer.cpp
f9bb6f36ac59a0b500d73e9fa9d8cec3 *src/getNumColumns.cpp
5d894fd8802b8eda6fac5500bfd2af04 *src/getNumRows.cpp
48b25116e5fe8223464fe563431cb389 *src/getRowColumn.cpp
27fae1e9d08f3ee21e3aa378f3ae412c *src/readblock.h
55812e46999a66eebb6308ae9b2d1bd6 *src/removeColumn.cpp
21c28b10981edb63fb9a947675143433 *src/removeRow.cpp
