********** TRAINING AND TESTING REPORT **********
Training file: training-data-set-70-NER.txt

best params:{'c1': 0.1053882018885364, 'c2': 0.0029077646757299266}
best CV score:0.843848676674025
model size: 0.13M

Flat F1: 0.8180124786394951
             precision    recall  f1-score   support

         OD      1.000     1.000     1.000        21
         pH      1.000     1.000     1.000        10
  Technique      1.000     1.000     1.000        33
        Med      1.000     0.821     0.902        56
       Temp      1.000     0.800     0.889        15
       Vess      0.000     0.000     0.000         0
       Agit      0.000     0.000     0.000         7
      Phase      1.000     0.762     0.865        21
        Air      0.905     0.432     0.585        88
       Anti      0.929     1.000     0.963        13
     Strain      0.000     0.000     0.000         0
      Gtype      0.912     0.795     0.849        78
  Substrain      0.000     0.000     0.000         0
       Supp      0.864     0.838     0.851       136
   Gversion      1.000     0.500     0.667         6

avg / total      0.914     0.760     0.818       484


Top likely transitions:
Temp   -> Temp    6.560804
Anti   -> Anti    5.857662
Med    -> Med     5.839228
Phase  -> Phase   5.142323
Gversion -> Gversion 4.862082
OD     -> OD      4.859765
Gtype  -> Gtype   4.772072
Technique -> Technique 4.770584
O      -> O       4.419208
Supp   -> Supp    4.232045
Air    -> Air     3.828719
pH     -> pH      3.741510
Agit   -> Agit    2.519079
Substrain -> Gtype   1.653541
O      -> Technique 0.935597
O      -> Gtype   0.570723
Temp   -> O       0.338964
Technique -> Air     0.278762
Med    -> O       0.176441
Gtype  -> pH      0.063653
pH     -> O       0.051738
O      -> pH      0.021754
Air    -> O       0.019870
O      -> Anti    0.002264
Gtype  -> Supp    0.000157
O      -> Gversion 0.000086
Vess   -> O       0.000015
Phase  -> O       0.000010
O      -> Vess    0.000006
Supp   -> Gtype   -0.048331
Phase  -> Air     -0.060112
Technique -> O       -0.090663
Supp   -> O       -0.115919
Anti   -> Supp    -0.143740
O      -> Supp    -0.144641
Technique -> Gtype   -0.202971
Phase  -> OD      -0.228379
Gtype  -> Technique -0.251730
Gtype  -> OD      -0.257636
Anti   -> Gtype   -0.286794
Agit   -> Air     -0.296289
OD     -> Supp    -0.306095
O      -> OD      -0.367345
Air    -> Phase   -0.373886
Air    -> Supp    -0.386643
OD     -> O       -0.415786
O      -> Med     -0.557792
Gtype  -> Temp    -0.587356
O      -> Phase   -0.798380
Gtype  -> Med     -0.919873
Gtype  -> O       -1.115725
Supp   -> Med     -1.192944
O      -> Air     -1.348032
Substrain -> O       -1.496080
Temp   -> Med     -2.176103
Technique -> pH      -2.248377
Med    -> Supp    -3.074041


Top unlikely transitions:
Temp   -> Temp    6.560804
Anti   -> Anti    5.857662
Med    -> Med     5.839228
Phase  -> Phase   5.142323
Gversion -> Gversion 4.862082
OD     -> OD      4.859765
Gtype  -> Gtype   4.772072
Technique -> Technique 4.770584
O      -> O       4.419208
Supp   -> Supp    4.232045
Air    -> Air     3.828719
pH     -> pH      3.741510
Agit   -> Agit    2.519079
Substrain -> Gtype   1.653541
O      -> Technique 0.935597
O      -> Gtype   0.570723
Temp   -> O       0.338964
Technique -> Air     0.278762
Med    -> O       0.176441
Gtype  -> pH      0.063653
pH     -> O       0.051738
O      -> pH      0.021754
Air    -> O       0.019870
O      -> Anti    0.002264
Gtype  -> Supp    0.000157
O      -> Gversion 0.000086
Vess   -> O       0.000015
Phase  -> O       0.000010
O      -> Vess    0.000006
Supp   -> Gtype   -0.048331
Phase  -> Air     -0.060112
Technique -> O       -0.090663
Supp   -> O       -0.115919
Anti   -> Supp    -0.143740
O      -> Supp    -0.144641
Technique -> Gtype   -0.202971
Phase  -> OD      -0.228379
Gtype  -> Technique -0.251730
Gtype  -> OD      -0.257636
Anti   -> Gtype   -0.286794
Agit   -> Air     -0.296289
OD     -> Supp    -0.306095
O      -> OD      -0.367345
Air    -> Phase   -0.373886
Air    -> Supp    -0.386643
OD     -> O       -0.415786
O      -> Med     -0.557792
Gtype  -> Temp    -0.587356
O      -> Phase   -0.798380
Gtype  -> Med     -0.919873
Gtype  -> O       -1.115725
Supp   -> Med     -1.192944
O      -> Air     -1.348032
Substrain -> O       -1.496080
Temp   -> Med     -2.176103
Technique -> pH      -2.248377
Med    -> Supp    -3.074041


Top positive:
8.126543 Phase    b'-2:lemma:phase'
7.594268 Anti     b'-2:lemma:antibody'
7.094564 O        b'-2:lemma:_'
6.682843 Air      b'lemma:anaerobic'
6.640498 Air      b'word:Aerobic'
5.580903 O        b'word:Cra'
5.491114 Air      b'word:Anaerobic'
4.510963 Gtype    b'hGreek'
4.415045 Med      b'lemma:MOPS'
4.415045 Med      b'word:MOPS'
4.154742 Technique b'word:ChIPSeq'
4.053887 Gtype    b'lemma:type'
4.053887 Gtype    b'word:type'
3.979121 Supp     b'lemma:arginine'
3.669924 O        b'lemma:_'
3.669924 O        b'word:_'
3.665780 Supp     b'+2:lemma:rifampicin'
3.662757 O        b'+2:lemma:\xc2\xb0c'
3.580628 O        b'lemma:-'
3.580628 O        b'word:-'
3.568059 Supp     b'lemma:nh4cl'
3.557610 Gtype    b'-2:lemma:delta'
3.526639 Supp     b'lemma:pq'
3.526639 Supp     b'word:PQ'
3.470053 O        b'-1:lemma:lb'
3.468175 Technique b'word:ChIP-Seq'
3.459725 Gtype    b'word:WT'
3.443087 Med      b'+2:lemma:b2'
3.413935 Phase    b'lemma:mid-log'
3.413935 Phase    b'word:mid-log'
3.329437 Supp     b'-2:lemma:shake'
3.244168 Gtype    b'-2:lemma:affyexp'
3.224823 Supp     b'-1:word:Cra'
3.187008 Gtype    b'-2:lemma:genotype/variation'
3.163576 Gtype    b'lemma:wt'
3.153909 Med      b'+2:lemma:b1'
3.138716 O        b'postag:VBG'
3.122002 Technique b'+2:lemma:ph5'
3.065430 O        b'word:A'
3.052429 Technique b'word:ChIP-exo'
3.009015 Air      b'postag:RB'
3.004231 Supp     b'lemma:Iron'
3.004231 Supp     b'word:Iron'
3.004231 Supp     b'+1:word:Deficient'
3.004231 Supp     b'-2:lemma:Anaerobic'
2.945537 Gtype    b'-1:lemma:\xe2\x88\x86'
2.945537 Gtype    b'-1:word:\xe2\x88\x86'
2.916120 O        b'+2:lemma:crp'
2.905658 O        b'lemma:.'
2.905658 O        b'postag:.'
2.905658 O        b'word:.'
2.842696 Med      b'lemma:LB'
2.835193 Gtype    b'+1:lemma:type'
2.835193 Gtype    b'+1:word:type'
2.793310 O        b'lemma:1'
2.793310 O        b'word:1'
2.701289 O        b'-1:postag:NNS'
2.688406 Technique b'lemma:rna-seq'
2.651542 Supp     b'lemma:no3'
2.651542 Supp     b'word:NO3'
2.635745 Gtype    b'-2:lemma:genotype'
2.624685 Temp     b'-2:lemma:keep'
2.580628 Med      b'word:LB'
2.580576 Strain   b'lemma:k-12'
2.580576 Strain   b'word:K-12'
2.555770 O        b'word:OmpR'
2.549009 O        b'lemma:2'
2.549009 O        b'word:2'
2.538797 O        b'lemma:b'
2.538797 O        b'word:B'
2.524516 Substrain b'-2:lemma:substr'
2.524497 Phase    b'postag:NN'
2.520396 O        b'lemma:3'
2.520396 O        b'word:3'
2.509226 Supp     b'+2:lemma:iptg'
2.447394 Supp     b'+1:lemma:\xc2\xb5m'
2.447394 Supp     b'+1:word:\xc2\xb5M'
2.430522 Air      b'-2:lemma:fnr'
2.420450 O        b'lemma:rpob'
2.420450 O        b'word:RpoB'
2.411320 Gtype    b'postag:JJ'
2.396306 O        b'+1:word:ChIP-Seq'
2.392400 Air      b'-2:lemma:0.3'
2.358453 O        b'-2:lemma:='
2.356417 O        b'-2:lemma:medium'
2.354481 Gversion b'lemma:chip-seq'
2.318100 Gtype    b'lemma:pk4854'
2.318100 Gtype    b'word:PK4854'
2.309599 Supp     b'lemma:glucose'
2.309599 Supp     b'word:glucose'
2.300694 O        b'lemma:with'
2.300694 O        b'word:with'
2.266521 Phase    b'+2:lemma:o.d.'
2.252017 Gversion b'word:ChIP-Seq'
2.200126 Gtype    b'+1:postag::'
2.193562 Supp     b'-2:lemma:for'
2.170361 Technique b'lemma:chipseq'
2.131652 Supp     b'-2:lemma:argr'
2.119698 O        b'lemma:at'
2.117366 O        b'-2:lemma:flagtag'
2.107382 O        b'lemma:for'
2.105001 Supp     b'-2:lemma:purr'
2.100503 Gtype    b'lemma:\xe2\x88\x86'
2.100503 Gtype    b'word:\xe2\x88\x86'
2.078534 Air      b'lemma:aerobic'
2.066217 Gtype    b'+2:lemma:glucose'
2.041343 Supp     b'lemma:2h'
2.041343 Supp     b'-1:lemma:additional'
2.041343 Supp     b'word:2h'
2.041343 Supp     b'-1:word:additional'
2.031388 Med      b'-2:lemma:fresh'
2.023208 Supp     b'lemma:nacl'
2.023208 Supp     b'word:NaCl'
2.020837 O        b'-1:lemma:tag'
2.018771 pH       b'+1:postag:CD'
2.017716 Air      b'lemma:aerobically'
2.017716 Air      b'word:aerobically'
1.996189 Technique b'lemma:rnaseq'
1.996189 Technique b'word:RNASeq'
1.990655 Supp     b'lemma:rifampicin'
1.990655 Supp     b'word:rifampicin'
1.982317 O        b'word:Lrp'
1.963506 O        b'+1:lemma:wt'
1.959414 O        b'postag::'
1.955896 O        b'+2:lemma:_'
1.954383 O        b'-2:lemma:myc'
1.950535 O        b'-2:lemma:overnight'
1.947804 Supp     b'lemma:iptg'
1.947804 Supp     b'word:IPTG'
1.944385 Supp     b'lemma:acetate'
1.944385 Supp     b'word:acetate'
1.943902 O        b'+1:word:WT'
1.928522 Med      b'lemma:media'
1.928522 Med      b'word:media'
1.921693 O        b'lemma::'
1.921693 O        b'word::'
1.911195 O        b'-1:word:Aerobic'
1.909464 O        b'lemma:chip'
1.908450 Anti     b'+2:lemma:antibody'
1.902612 Technique b'lemma:ChIP-exo'
1.899491 Supp     b'-1:lemma:Cra'
1.876030 Med      b'+2:postag:CC'
1.865955 Air      b'postag:JJ'
1.856640 O        b'lemma:genotype/variation'
1.856640 O        b'word:genotype/variation'
1.838868 O        b'-2:lemma:ChIP-Seq'
1.836302 O        b'+1:lemma:od600'
1.836302 O        b'+1:word:OD600'
1.833216 Gversion b'-2:lemma:build'
1.827247 Supp     b'-2:lemma:media'
1.823848 Temp     b'-1:word:sample'
1.793773 Supp     b'postag:NNP'
1.782480 Temp     b'-1:lemma:sample'
1.708300 O        b'-1:word:Anaerobic'
1.703880 Substrain b'lemma:mg1655'
1.703880 Substrain b'word:MG1655'
1.701553 O        b'-1:word:tag'
1.696533 Phase    b'-2:lemma:until'
1.689046 O        b'postag:VBN'
1.684101 Supp     b'-2:lemma:10'
1.681729 O        b'lemma:rep2'
1.681729 O        b'word:rep2'
1.681729 O        b'lemma:rep1'
1.681729 O        b'word:rep1'
1.648679 Supp     b'-2:lemma:trpr'
1.640871 O        b'postag:IN'
1.638088 Air      b'-1:lemma:-'
1.638088 Air      b'-1:word:-'
1.629607 Gtype    b'lemma:dfnr'
1.629607 Gtype    b'word:dFNR'
1.623495 Supp     b'-2:postag:VBG'
1.620323 O        b'lemma:culture'
1.617891 Air      b'-1:lemma:ChIP-Seq'
1.617891 Air      b'-1:word:ChIP-Seq'
1.617144 Gversion b'-2:postag:VB'
1.607051 O        b'-1:lemma:type'
1.607051 O        b'-1:word:type'
1.606150 Air      b'-2:lemma:IP'
1.595984 Med      b'+2:lemma:+'
1.532509 pH       b'lemma:ph5'
1.532509 pH       b'+1:lemma:.5'
1.532509 pH       b'word:pH5'
1.532509 pH       b'+1:word:.5'
1.531711 Air      b'-2:lemma:cm20'
1.517076 O        b'lemma:CEL'
1.517076 O        b'word:CEL'
1.506396 O        b'-1:lemma:anaerobic'
1.503745 O        b'+1:postag:RB'
1.502842 O        b'+1:postag:NNP'
1.500490 Temp     b'-1:lemma:\xcf\x8332'
1.500490 Temp     b'-1:word:\xcf\x8332'
1.492157 Supp     b'+1:lemma:1'
1.492157 Supp     b'+1:word:1'
1.489201 O        b'-1:lemma:0.3'
1.489201 O        b'-1:word:0.3'
1.483755 OD       b'lemma:0.3'
1.483755 OD       b'word:0.3'
1.469052 Technique b'-1:lemma:chip-exo'
1.462974 Supp     b'lemma:Leu'
1.462974 Supp     b'word:Leu'
1.462974 Supp     b'-2:lemma:Lrp'
1.453644 Gtype    b'-1:postag:VBP'
1.449471 OD       b'postag:CD'
1.443854 Anti     b'+1:lemma:antibody'
1.443854 Anti     b'+1:word:antibody'
1.442163 O        b'-1:lemma:ChIP-exo'
1.441461 Supp     b'-1:lemma:+'
1.441461 Supp     b'-1:word:+'
1.436655 Temp     b'lemma:43'
1.436655 Temp     b'word:43'
1.435381 Supp     b'-2:lemma:20'
1.433105 Supp     b'lemma:Adenine'
1.433105 Supp     b'word:Adenine'
1.432016 Supp     b'-2:lemma:supplement'
1.425152 O        b'lemma:harbor'
1.425152 O        b'word:harboring'
1.420851 OD       b'lemma:od450'
1.420851 OD       b'word:OD450'
1.420851 OD       b'-1:word:At'
1.411771 O        b'-1:lemma:glucose'
1.411771 O        b'-1:word:glucose'
1.405095 Temp     b'-2:lemma:\xcf\x8332'
1.394835 O        b'+2:postag:VB'
1.392554 Gtype    b'-2:lemma:-rcb-'
1.355265 O        b'lemma:chip-fnr'
1.355265 O        b'word:chip-Fnr'
1.355265 O        b'+2:lemma:fnr8myc'
1.352270 Technique b'hUpper'
1.346257 Gtype    b'hUpper'
1.344689 O        b'+1:lemma:fnr-8myc'
1.344689 O        b'+1:word:Fnr-8myc'
1.333410 O        b'+1:lemma:pq'
1.333410 O        b'+1:word:PQ'
1.332769 Gversion b'lemma:000913'
1.332769 Gversion b'word:000913'
1.332769 Gversion b'-2:lemma:nc'
1.330180 Supp     b'+1:lemma:2'
1.330180 Supp     b'+1:word:2'
1.324991 O        b'-2:lemma:~'
1.318846 Technique b'-1:lemma:_'
1.318846 Technique b'-1:word:_'
1.314653 Temp     b'+1:lemma:\xc2\xb0c'
1.314653 Temp     b'+1:word:\xc2\xb0C'
1.291639 Supp     b'-1:postag:IN'
1.291124 O        b'lemma:purr'
1.291124 O        b'word:PurR'
1.283451 O        b'-2:lemma:\xe2\x88\x86'
1.283310 O        b'lemma:argr'
1.283310 O        b'word:ArgR'
1.273320 Anti     b'-2:lemma:polymerase'
1.265498 O        b'symb'
1.265452 Temp     b'-1:lemma:43'
1.265452 Temp     b'-1:word:43'
1.264659 Supp     b'lemma:Fe'
1.264659 Supp     b'word:Fe'
1.262024 Gtype    b'-1:lemma:nsrr'
1.262024 Gtype    b'+1:lemma:flagtag'
1.262024 Gtype    b'-1:word:NsrR'
1.262024 Gtype    b'+1:word:Flagtag'
1.261333 O        b'+2:lemma:constant'
1.253748 Gtype    b'-1:lemma:rpob'
1.253748 Gtype    b'-1:word:RpoB'
1.253090 O        b'lemma:soxr'
1.253090 O        b'word:SoxR'
1.253090 O        b'lemma:soxs'
1.253090 O        b'word:SoxS'
1.249297 Supp     b'-1:lemma:potassium'
1.249297 Supp     b'-1:word:potassium'
1.249297 Supp     b'-2:lemma:mmol'
1.248159 O        b'+1:lemma:250'
1.248159 O        b'+1:word:250'
1.244749 Supp     b'lemma:fructose'
1.244749 Supp     b'word:fructose'
1.236532 O        b'-2:lemma:reach'
1.227719 Gtype    b'+1:word:the'
1.226070 Supp     b'-1:lemma:with'
1.226070 Supp     b'-1:word:with'
1.213727 Supp     b'-1:word:OmpR'
1.198014 Substrain b'+1:lemma:phtpg'
1.198014 Substrain b'+1:word:PhtpG'
1.195818 Gtype    b'+1:lemma:the'
1.192743 O        b'-2:lemma:co2'
1.191095 O        b'-2:lemma:min'
1.185502 Gtype    b'lemma:\xce\xb4fur'
1.185502 Gtype    b'word:\xce\x94fur'
1.184600 Supp     b'+1:word:was'
1.180454 Temp     b'lemma:37'
1.180454 Temp     b'word:37'
1.172413 Anti     b'postag:JJ'
1.164224 O        b'isLower'
1.158436 O        b'+1:lemma:rifampicin'
1.158436 O        b'+1:word:rifampicin'
1.156879 Supp     b'-2:lemma:agent'
1.154455 O        b'-1:lemma:mg1655'
1.154455 O        b'-1:word:MG1655'
1.153228 Agit     b'+2:lemma:at'
1.150621 O        b'-1:lemma:\xc2\xb0c'
1.150621 O        b'-1:word:\xc2\xb0C'
1.148866 Med      b'+1:lemma:0.4'
1.148866 Med      b'+1:word:0.4'
1.147031 Supp     b'+2:lemma:-lrb-'
1.144410 Air      b'lemma:anaeroibc'
1.144410 Air      b'word:Anaeroibc'
1.142569 O        b'+1:postag:VBZ'
1.142079 Vess     b'lemma:flask'
1.142079 Vess     b'-1:lemma:warm'
1.142079 Vess     b'word:flask'
1.142079 Vess     b'-1:word:warmed'
1.142079 Vess     b'-2:lemma:pre'
1.142079 Vess     b'+2:lemma:43'
1.140678 O        b'-1:word:ChIP-exo'
1.137532 Substrain b'-1:lemma:.'
1.137532 Substrain b'-1:postag:.'
1.137532 Substrain b'-1:word:.'
1.136055 O        b'lemma:ml'
1.131477 Technique b'-1:lemma:input'
1.131477 Technique b'-1:word:Input'
1.130655 pH       b'lemma:5.5'
1.130655 pH       b'word:5.5'
1.121603 Supp     b'-1:lemma:vol'
1.121603 Supp     b'-1:word:vol'
1.121603 Supp     b'-2:lemma:1/100'
1.121603 Supp     b'+2:lemma:1m'
1.118613 Supp     b'-2:lemma:pahse'
1.111535 O        b'+2:postag:JJ'
1.107422 Med      b'lemma:m63'
1.107422 Med      b'word:M63'
1.107100 O        b'lemma:trpr'
1.107100 O        b'word:TrpR'
1.105419 O        b'+2:lemma:chipseq'
1.104670 Gversion b'lemma:u00096'
1.104670 Gversion b'+1:lemma:.2'
1.104670 Gversion b'word:U00096'
1.104670 Gversion b'+1:word:.2'
1.104011 Temp     b'lemma:\xc2\xb0c'
1.104011 Temp     b'word:\xc2\xb0C'
1.101504 OD       b'+2:lemma:0.3'
1.100643 Supp     b'-1:postag:CD'
1.097757 Agit     b'+1:lemma:rpm'
1.097757 Agit     b'+1:word:rpm'
1.097438 Supp     b'-2:lemma:induce'
1.084182 Air      b'+2:lemma:37'
1.080634 O        b'-1:lemma:into'
1.080634 O        b'-1:word:into'
1.076933 O        b'+1:lemma:0.2'
1.076933 O        b'+1:word:0.2'
1.074133 O        b'-1:lemma:wt'
1.044172 Med      b'-1:word:ml'
1.043862 Air      b'-1:lemma:co2'
1.043862 Air      b'-1:word:CO2'
1.041803 Med      b'-1:lemma:ml'
1.041440 Gtype    b'lemma:deltaseqa'
1.041440 Gtype    b'-1:lemma:old'
1.041440 Gtype    b'word:deltaSeqA'
1.041440 Gtype    b'-1:word:old'
1.041440 Gtype    b'-2:lemma:seqa'
1.039999 O        b'+1:lemma:mid-log'
1.039999 O        b'+1:word:mid-log'
1.037553 O        b'lemma:or'
1.037553 O        b'word:or'
1.035768 O        b'lemma:affyexp'
1.035768 O        b'word:affyexp'
1.035428 O        b'lemma:chip-arca'
1.035428 O        b'word:chip-ArcA'
1.035428 O        b'+2:lemma:arca8myc'
1.030002 O        b'+1:lemma:20'
1.030002 O        b'+1:word:20'
1.025698 Gversion b'lemma:.2'
1.025698 Gversion b'-1:lemma:u00096'
1.025698 Gversion b'word:.2'
1.025698 Gversion b'-1:word:U00096'
1.011982 Supp     b'symb'
1.010523 OD       b'-1:postag:IN'
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