Directory structure for http://gremlin1.gdcb.iastate.edu/~volker/SB05B/ SBO5B - this directory | | -- BSSM4GSQ - source code for BSSM4GSQ, a package for preparing BSSM | training data and parameters | | -- misc - contains source for mutseqer, which randomly mutates | Fasta-formatted nucleotide sequences | | -- original_alignments - contains the original GeneSeqer-derived | cDNA spliced alignments used to produce GC-AG BSSM parameters | | -- test_alignments - contains spliced alignments generated by the | various programs assayed for competence on known gene structures | | -- test_data - contains the genomic sequences and associative | pseudotranscripts for the known gene structures used to assess | spliced alignment programs | | -- unannotated_GCAG - a list of GC-AG introns we identified in | Arabidopsis thaliana that were not identified in the current | annotation available at TAIR and TIGR