GOR I, III, IV, V java implementation

Prediction of secondary structure.

Parameter

Prediction Option Description

---

--format txt|html
--maf path to directory with .aln files (GOR V)
--model path to fileoutput
--probabilities include the probabilities in the
output (0-9, coloring in html)
--seq [File] path to dssp training file

Training Option Description

---

--db path to dssp training file
--method <gor1|gor3|gor4>
--model path to fileoutput

Example

GorTrainRunner --db data/GOR/CB513DSSP.db --model testoutput/gor4_jar.txt --method gor4 GorPredictRunner --format txt --model testoutput/gor4_jar.txt --maf data/GOR/CB513MultipleAlignments/ --probabilities