char *fimo_html_string =
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"FIMO Results\n"
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"FIMO - Motif search tool\n"
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"\n"
"@version@\n"
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"\n"
"@interpreting@\n"
"
\n"
"If you use FIMO in your research, please cite the following paper:
\n"
"Charles E. Grant, Timothy L. Bailey, and William Stafford Noble,\n"
"\"FIMO: Scanning for occurrences of a given motif\",\n"
"Bioinformatics, 27(7):1017-1018, 2011.\n"
"[full text]
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"DATABASE AND MOTIFS\n"
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"@database_and_motifs@\n"
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"SECTION I: HIGH-SCORING MOTIF OCCURENCES\n"
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"\n"
"- \n"
"@counts@\n"
"The full set of motif occurences can be seen in the\n"
"TSV (tab-delimited values) output file\n"
"fimo.tsv, \n"
"the GFF3 file \n"
"fimo.gff \n"
"which may be suitable for uploading to the \n"
"UCSC Genome Table Browser\n"
"(assuming the FASTA input sequences included genomic coordinates in UCSC or Galaxy format),\n"
"or the XML file \n"
"fimo.xml.\n"
"
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"- \n"
"The p-value of a motif occurrence is defined as the\n"
"probability of a random sequence of the same length as the motif\n"
"matching that position of the sequence with as good or better a score.\n"
"
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"- \n"
"The score for the match of a position in a sequence to a motif\n"
"is computed by summing the appropriate entries from each column of\n"
"the position-dependent scoring matrix that represents the motif.\n"
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"- \n"
"The q-value of a motif occurrence is defined as the\n"
"false discovery rate if the occurrence is accepted as significant.\n"
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"- The table is sorted by increasing p-value.
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"@match_table@\n"
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"DEBUGGING INFORMATION\n"
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"\n"
"Command line:\n"
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"\n"
"@command_line@\n"
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"\n"
"Settings:\n"
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"\n"
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"\n"
"This information can be useful in the event you wish to report a\n"
"problem with the FIMO software.\n"
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"Go to top\n"
"\n"
"\n"
"";
/******************
void fimo_print_version();
void fimo_print_database_and_motifs();
void fimo_print_counts();
void fimo_print_match_table();
void fimo_print_command_line();
void fimo_print_parameters();
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