# Mario Stanke, April 9th, 2015
# see also /fs2.cm/species/rice/training
trained on a selection of 800 genes with UTRs from phytozome

evaluation on separate test set with 200 genes:

---------------------------------------------\
                 | sensitivity | specificity |
---------------------------------------------|
nucleotide level |        0.86 |       0.626 |
---------------------------------------------/

----------------------------------------------------------------------------------------------------------\
           |  #pred |  #anno |      |    FP = false pos. |    FN = false neg. |             |             |
           | total/ | total/ |   TP |--------------------|--------------------| sensitivity | specificity |
           | unique | unique |      | part | ovlp | wrng | part | ovlp | wrng |             |             |
----------------------------------------------------------------------------------------------------------|
           |        |        |      |                537 |                344 |             |             |
exon level |   1281 |   1088 |  744 | ------------------ | ------------------ |       0.684 |       0.581 |
           |   1281 |   1088 |      |  138 |   15 |  384 |  139 |   12 |  193 |             |             |
----------------------------------------------------------------------------------------------------------/

----------------------------------------------------------------------------\
transcript | #pred | #anno |   TP |   FP |   FN | sensitivity | specificity |
----------------------------------------------------------------------------|
gene level |   299 |   200 |   59 |  240 |  141 |       0.295 |       0.197 |
----------------------------------------------------------------------------/

------------------------------------------------------------------------\
            UTR | total pred | CDS bnd. corr. |   meanDiff | medianDiff |
------------------------------------------------------------------------|
            TSS |        277 |            116 |        322 |         74 |
            TTS |        265 |            111 |        232 |        136 |
------------------------------------------------------------------------|
            UTR | uniq. pred |    unique anno |      sens. |      spec. |
------------------------------------------------------------------------|
                |  true positive = 1 bound. exact, 1 bound. <= 20bp off |
 UTR exon level |        565 |            457 |      0.105 |      0.085 |
------------------------------------------------------------------------|
 UTR base level |     132789 |         124379 |      0.359 |      0.336 |
------------------------------------------------------------------------/