Additional file 20 shows the both cases of the classifications of all of the mapped small RNA reads and only the reads that is identical to the genome sequences.
In the case of the classification according to the taxonomic Order, the SMO model classified correctly the 30 out of the 34 strains reaching the impressive 88.2% of correct classification.
MDR is a special case of the classification and regression tree (CART) model (Bastone et al. 2004), where subjects can be classified into multiple groups (terminal nodes).
The validity of Framework sequences was further confirmed in the case of the classification of 95 Clostridium sp. up to species level, by in silico RE digestions especially - AluI, BfaI and DpnII.
In cases of disagreement, the classification was established in consultation with specialists in pediatric infectious diseases and pediatric rheumatology.
However overall we have to mention that it seems that in some cases performance of the classification methods depends on the dataset and a specific method cannot be concluded as a best method.
In this case, minimization of the classification error rate is a more suitable objective than minimization of the error of the parameter estimates.
In case of RF the classification mode has a slight edge while for NNs and SVMs the regression mode wins.
However, in the case of autoimmunity, the classification is not related to the organism from which the epitope is derived, but rather from a broad classification of the associated autoimmune disease manifestation.
Molecular biological analysis to demonstrate the classic translocation was performed in 30/92 (33%) lipomatous tumors revised as myxoid liposarcoma and confirmed the diagnosis in 18 (60%) of these cases, supporting the classification of myxoid liposarcoma.
