Index of /ftp/marnin_datasets/IITA_2021GS/output/
../
BeagleLogs/ 11-Aug-2021 13:44 -
AllChrom_RefPanelAndGSprogeny_ReadyForGP_2021Au..> 11-Aug-2021 13:41 357207090
AllChrom_RefPanelAndGSprogeny_ReadyForGP_2021Au..> 11-Aug-2021 13:35 1771699
AllChrom_RefPanelAndGSprogeny_ReadyForGP_2021Au..> 11-Aug-2021 13:37 883128
AllChrom_RefPanelAndGSprogeny_ReadyForGP_2021Au..> 11-Aug-2021 13:37 410831892
AllChrom_RefPanelAndGSprogeny_ReadyForGP_2021Au..> 11-Aug-2021 13:35 1702
AllChrom_RefPanelAndGSprogeny_ReadyForGP_2021Au..> 11-Aug-2021 13:37 673140
AllChrom_RefPanelAndGSprogeny_ReadyForGP_2021Au..> 11-Aug-2021 13:33 1299640
AllChrom_RefPanelAndGSprogeny_ReadyForGP_2021Au..> 11-Aug-2021 13:40 727191128
CrossesToPredict_2021Aug10.rds 11-Aug-2021 13:42 10380
IITA_CleanedTrialData_2021Aug08.rds 26-Aug-2021 12:44 14101217
IITA_ExptDesignsDetected_2021Aug08.rds 26-Aug-2021 12:44 14830824
IITA_blupsForModelTraining_twostage_asreml_2021..> 11-Aug-2021 13:37 9790634
IITA_trials_NOT_identifiable.csv 26-Aug-2021 12:44 8486
chr10_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:37 82066
chr10_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:37 286492
chr10_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:33 479
chr10_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:36 29367
chr10_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:41 3414349
chr10_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:40 2872889
chr10_RefPanelAndGSprogeny72719_SubsetAndReadyT..> 11-Aug-2021 13:36 28
chr10_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:36 30730421
chr10_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:42 6131
chr11_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:41 93247
chr11_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:38 325485
chr11_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:36 479
chr11_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:36 32878
chr11_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:35 4254149
chr11_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:35 3379849
chr11_RefPanelAndGSprogeny72719_SubsetAndReadyT..> 11-Aug-2021 13:41 28
chr11_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:42 38203358
chr11_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:33 7501
chr12_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:33 81678
chr12_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:33 284829
chr12_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:37 479
chr12_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:37 31406
chr12_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:33 3173758
chr12_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:33 2821079
chr12_RefPanelAndGSprogeny72719_SubsetAndReadyT..> 11-Aug-2021 13:35 28
chr12_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:36 33561277
chr12_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:41 7292
chr13_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:35 80944
chr13_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:36 281128
chr13_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:38 479
chr13_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:35 30167
chr13_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:36 3165235
chr13_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:38 2665089
chr13_RefPanelAndGSprogeny72719_SubsetAndReadyT..> 11-Aug-2021 13:40 28
chr13_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:41 30504370
chr13_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:33 6770
chr14_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:33 151148
chr14_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:35 526342
chr14_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:41 479
chr14_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:37 58639
chr14_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:42 4741418
chr14_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:36 4281558
chr14_RefPanelAndGSprogeny72719_SubsetAndReadyT..> 11-Aug-2021 13:33 28
chr14_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:35 51853725
chr14_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:40 8416
chr15_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:33 108067
chr15_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:33 379168
chr15_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:38 479
chr15_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:35 39070
chr15_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:35 4450125
chr15_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:38 3655795
chr15_RefPanelAndGSprogeny72719_SubsetAndReadyT..> 11-Aug-2021 13:37 28
chr15_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:41 40361903
chr15_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:33 7884
chr16_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:37 79943
chr16_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:41 277392
chr16_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:35 479
chr16_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:33 31847
chr16_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:33 3379482
chr16_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:37 3143515
chr16_RefPanelAndGSprogeny72719_SubsetAndReadyT..> 11-Aug-2021 13:33 28
chr16_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:33 36448609
chr16_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:38 7113
chr17_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:40 82977
chr17_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:38 284004
chr17_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:33 479
chr17_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:38 31088
chr17_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:37 2998575
chr17_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:33 2477344
chr17_RefPanelAndGSprogeny72719_SubsetAndReadyT..> 11-Aug-2021 13:38 28
chr17_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:38 28808693
chr17_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:33 6394
chr18_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:33 88730
chr18_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:37 311992
chr18_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:33 479
chr18_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:38 32092
chr18_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:40 3663423
chr18_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:33 3137081
chr18_RefPanelAndGSprogeny72719_SubsetAndReadyT..> 11-Aug-2021 13:37 28
chr18_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:37 34329362
chr18_RefPanelAndGSprogeny_ReadyForGP_2021Aug08..> 11-Aug-2021 13:37 6871
chr1_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:33 222998
chr1_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:38 789000
chr1_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:33 477
chr1_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:41 82090
chr1_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:35 8864764
chr1_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:37 7529215
chr1_RefPanelAndGSprogeny72719_SubsetAndReadyTo..> 11-Aug-2021 13:36 28
chr1_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:38 97428958
chr1_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:41 12970
chr2_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:38 104572
chr2_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:35 376573
chr2_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:41 477
chr2_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:42 36758
chr2_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:33 4785348
chr2_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:38 4140489
chr2_RefPanelAndGSprogeny72719_SubsetAndReadyTo..> 11-Aug-2021 13:40 28
chr2_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:33 44427078
chr2_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:33 8799
chr3_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:36 113018
chr3_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:33 402951
chr3_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:38 477
chr3_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:33 38972
chr3_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:38 4752198
chr3_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:36 3842048
chr3_RefPanelAndGSprogeny72719_SubsetAndReadyTo..> 11-Aug-2021 13:35 28
chr3_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:38 43022736
chr3_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:42 9524
chr4_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:38 101830
chr4_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:33 362502
chr4_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:37 477
chr4_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:38 36383
chr4_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:38 3989874
chr4_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:37 3302773
chr4_RefPanelAndGSprogeny72719_SubsetAndReadyTo..> 11-Aug-2021 13:37 28
chr4_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:33 38167894
chr4_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:33 7539
chr5_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:37 109472
chr5_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:36 391701
chr5_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:38 477
chr5_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:33 38635
chr5_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:36 4381207
chr5_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:33 3755602
chr5_RefPanelAndGSprogeny72719_SubsetAndReadyTo..> 11-Aug-2021 13:33 28
chr5_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:37 43215438
chr5_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:38 9836
chr6_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:35 97993
chr6_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:37 347079
chr6_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:33 477
chr6_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:33 36248
chr6_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:33 3951302
chr6_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:35 3468579
chr6_RefPanelAndGSprogeny72719_SubsetAndReadyTo..> 11-Aug-2021 13:38 28
chr6_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:33 37814204
chr6_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:33 7847
chr7_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:33 55279
chr7_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:38 197886
chr7_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:36 477
chr7_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:40 17909
chr7_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:37 2567373
chr7_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:40 1956349
chr7_RefPanelAndGSprogeny72719_SubsetAndReadyTo..> 11-Aug-2021 13:33 28
chr7_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:36 22199498
chr7_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:40 4894
chr8_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:40 99969
chr8_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:40 356984
chr8_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:35 477
chr8_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:37 33063
chr8_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:41 4274850
chr8_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:42 3322993
chr8_RefPanelAndGSprogeny72719_SubsetAndReadyTo..> 11-Aug-2021 13:33 28
chr8_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:41 37447463
chr8_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:35 7189
chr9_DCas21_6038_WA_REFimputed.INFO 11-Aug-2021 13:37 94001
chr9_DCas21_6038_WA_REFimputed.hwe 11-Aug-2021 13:37 335343
chr9_DCas21_6038_WA_REFimputed.log 11-Aug-2021 13:33 477
chr9_DCas21_6038_WA_REFimputed.sitesPassing 11-Aug-2021 13:35 34901
chr9_DCas21_6038_WA_REFimputed.vcf.gz 11-Aug-2021 13:35 3853920
chr9_DCas21_6038_WA_REFimputedAndFiltered.vcf.gz 11-Aug-2021 13:33 3477390
chr9_RefPanelAndGSprogeny72719_SubsetAndReadyTo..> 11-Aug-2021 13:37 28
chr9_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:35 40942654
chr9_RefPanelAndGSprogeny_ReadyForGP_2021Aug08...> 11-Aug-2021 13:38 8680
estimateErrorCov_byTrialType_asreml_2021Aug25.rds 26-Aug-2021 12:44 16632950
estimateErrorCov_byTrialType_asreml_summary_202..> 26-Aug-2021 12:44 6334
estimateSelectionError.rds 26-Aug-2021 12:44 14607344
estimateSelectionError_adjSIwts_2021Aug24.rds 26-Aug-2021 12:44 4684630
estimateSelectionError_origSIwts_2021Aug24.rds 26-Aug-2021 12:44 4685160
genomicMatePredictions_2021Aug10.csv 12-Aug-2021 14:14 88198267
genomicMatePredictions_full_set_2021Aug10.rds 11-Aug-2021 13:33 7688215
genomicMatePredictions_medium_set_2021Aug10.rds 12-Aug-2021 14:14 52199214
genomicPredictions_full_set_2021Aug09.csv 11-Aug-2021 13:42 4723695
genomicPredictions_full_set_2021Aug09.rds 11-Aug-2021 13:38 23169220
genomicPredictions_medium_set_2021Aug09.rds 11-Aug-2021 13:33 13539877
genomicPredictions_reduced_set_2021Aug09.rds 11-Aug-2021 13:35 10850714
kinship_A_IITA_2021Aug09.rds 11-Aug-2021 13:35 600500029
kinship_A_MediumSNPset_IITA_2021Aug09.rds 11-Aug-2021 13:42 600534906
kinship_A_ReducedSNPset_IITA_2021Aug09.rds 11-Aug-2021 13:40 600476459
kinship_Dgeno_IITA_2021Aug09.rds 11-Aug-2021 13:37 600735536
kinship_Dgeno_MediumSNPset_IITA_2021Aug09.rds 11-Aug-2021 13:44 600854000
kinship_Dgeno_ReducedSNPset_IITA_2021Aug09.rds 11-Aug-2021 13:35 600831944
maxNOHAV_byStudy.csv 26-Aug-2021 12:44 114316
parentWiseCV_full_set_CrossPredAccuracy.rds 12-Aug-2021 14:14 13131498
parentWiseCV_medium_set_CrossPredAccuracy.rds 11-Aug-2021 13:33 13129845
parentWiseCV_reduced_set_CrossPredAccuracy.rds 12-Aug-2021 14:14 13184024
parentsToPredictCrosses_2021Aug10.rds 11-Aug-2021 13:38 1511
ped2check_genome.rds 11-Aug-2021 13:37 314453
ped2genos.txt 26-Aug-2021 12:44 409314
pednames2keep.txt 11-Aug-2021 13:33 166226
pednames_Prune100_25_pt25.log 11-Aug-2021 13:42 2157
pednames_Prune100_25_pt25.nosex 11-Aug-2021 13:38 673140
pednames_Prune100_25_pt25.prune.in 11-Aug-2021 13:40 25915
pednames_Prune100_25_pt25.prune.out 11-Aug-2021 13:33 706837
samples2keep_IITA_2021Aug09.txt 11-Aug-2021 13:38 224285
samples2keep_IITA_MAFpt01_prune1Mb_50kb_pt6.log 11-Aug-2021 13:40 2257
samples2keep_IITA_MAFpt01_prune1Mb_50kb_pt6.nosex 11-Aug-2021 13:36 673140
samples2keep_IITA_MAFpt01_prune1Mb_50kb_pt6.pru..> 11-Aug-2021 13:36 100597
samples2keep_IITA_MAFpt01_prune1Mb_50kb_pt6.pru..> 11-Aug-2021 13:36 628108
samples2keep_IITA_MAFpt01_prune1Mb_50kb_pt8.log 11-Aug-2021 13:33 2259
samples2keep_IITA_MAFpt01_prune1Mb_50kb_pt8.nosex 11-Aug-2021 13:37 673140
samples2keep_IITA_MAFpt01_prune1Mb_50kb_pt8.pru..> 11-Aug-2021 13:33 160101
samples2keep_IITA_MAFpt01_prune1Mb_50kb_pt8.pru..> 11-Aug-2021 13:37 568604
samples2keep_IITA_MAFpt01_prune50_25_pt98.log 11-Aug-2021 13:36 2261
samples2keep_IITA_MAFpt01_prune50_25_pt98.nosex 11-Aug-2021 13:33 673140
samples2keep_IITA_MAFpt01_prune50_25_pt98.prune.in 11-Aug-2021 13:38 374923
samples2keep_IITA_MAFpt01_prune50_25_pt98.prune..> 11-Aug-2021 13:35 353782
siErrorVarEst_byTrialType_directApproach_2021Au..> 26-Aug-2021 12:44 1818
siErrorVarEst_byTrialType_indirectApproach_2021..> 26-Aug-2021 12:44 484
standardCV_full_set_ClonePredAccuracy.rds 11-Aug-2021 13:42 86140110
standardCV_medium_set_ClonePredAccuracy.rds 11-Aug-2021 13:38 86140095
standardCV_reduced_set_ClonePredAccuracy.rds 11-Aug-2021 13:40 86218082
top50crosses.csv 26-Aug-2021 12:44 11670
verified_ped.txt 26-Aug-2021 12:44 291406