GitHubHelp

CWayneH/Bioinfo

★ 0Forks 0RGitHub ↗Compare

README

Bioinfo

reference1: scHiCstackL reference2: scHiCluster

data explore

  • label / pca result

  • label : 0, 1, 2, 3 ; multi-class problem of classification

  • 50 dims of pca result

    mouse178 human626 human2655
    min -0.084252 -0.04816 -0.082192
    max 0.126095 0.071334 0.044072
    lable:0 114 44 44
    lable:1 32 214 744
    lable:2 32 258 1757
    lable:3 - 110 110

metrics

  • MCC : Matthews's correlation coefficient, 採Macro-averaging算法
  • Acc : Accuracy
  • F1 : 採Macro-averaging算法
  • Precision : 採Macro-averaging算法

model use

result

  • 178 entries of mouse : time elapsed of 3.371998 secs ( CPU @ 2.40GHz，2419 Mhz )

    find top 5 glm.precision within validation

    fold.4_test fold.1_test fold.5_valid fold.9_test fold.6_valid
    ranger.MCC 0.889209 0.679575 0.717454 0.144236 0.838393
    ranger.Acc 0.944444 0.809524 0.866667 0.600000 0.937500
    ranger.F1 0.920000 0.757980 0.858333 0.580952 0.841270
    ranger.Precision 0.974359 0.817460 0.923077 0.388889 0.916667
    rpart.MCC 0.783333 0.602494 0.728322 0.366954 0.605941
    rpart.Acc 0.888889 0.761905 0.866667 0.666667 0.812500
    rpart.F1 0.861111 0.710678 0.805556 0.553968 0.734300
    rpart.Precision 0.861111 0.756410 0.948718 0.722222 0.833333
    glm.MCC 0.889209 0.901005 0.871207 0.757690 0.838393
    glm.Acc 0.944444 0.952381 0.933333 0.866667 0.937500
    glm.F1 0.920000 0.918841 0.918841 0.800000 0.841270
    glm.Precision 0.974359 0.972222 0.972222 0.939394 0.916667

  • 626 entries of human : time elapsed of 6.838981 secs

    find top 5 rpart.precision within validation

    fold.4_train fold.5_test fold.6_train fold.2_train fold.7_train
    ranger.MCC 1.000000 0.787939 1.000000 1.000000 1.000000
    ranger.Acc 1.000000 0.928571 1.000000 1.000000 1.000000
    ranger.F1 1.000000 0.795788 1.000000 1.000000 1.000000
    ranger.Precision 1.000000 0.952381 1.000000 1.000000 1.000000
    rpart.MCC 0.954866 0.877530 0.917368 0.891040 0.889022
    rpart.Acc 0.974490 0.946429 0.962085 0.953431 0.948529
    rpart.F1 0.969775 0.902456 0.938147 0.915069 0.918387
    rpart.Precision 0.973076 0.962454 0.948551 0.938901 0.925794
    glm.MCC 1.000000 1.000000 1.000000 1.000000 1.000000
    glm.Acc 1.000000 1.000000 1.000000 1.000000 1.000000
    glm.F1 1.000000 1.000000 1.000000 1.000000 1.000000
    glm.Precision 1.000000 1.000000 1.000000 1.000000 1.000000

  • 2655 entries of human : time elapsed of 34.62061 secs

    find top 5 ranger.MCC within validation

    fold.3_valid fold.4_test fold.8_valid fold.9_test fold.4_valid
    ranger.MCC 0.995169 0.995169 0.984838 0.984838 0.983942
    ranger.Acc 0.996377 0.996377 0.986425 0.986425 0.985185
    ranger.F1 0.996350 0.996350 0.989655 0.989655 0.989362
    ranger.Precision 0.992754 0.992754 0.979730 0.979730 0.979167
    rpart.MCC 0.550788 0.567884 0.612893 0.585534 0.569971
    rpart.Acc 0.836364 0.843636 0.828054 0.814480 0.802974
    rpart.F1 0.774681 0.782506 0.803051 0.792637 0.773657
    rpart.Precision 0.787209 0.799857 0.822350 0.796795 0.812443
    glm.MCC 1.000000 1.000000 0.934782 0.934782 0.961504
    glm.Acc 1.000000 1.000000 0.995475 0.995475 0.996296
    glm.F1 1.000000 1.000000 0.931002 0.931002 0.961141
    glm.Precision 1.000000 1.000000 0.995370 0.995370 0.933333

Contributors

CWayneH

Issues