public ActionResult SeqInput(string seq)
{
Match match = new Match();
if (match.MatchNuc(seq))
{
Sequence sequence = new Sequence
{
Seq = seq,
SeqLength = seq.Length
};
SeqOutput seqOutput = new SeqOutput(sequence);
ViewBag.SeqLength = sequence.SeqLength;
ViewBag.SeqOutput = seqOutput.SeqOut();
//Dinucleotide calculation
DinucCalc dinucCalc = new DinucCalc(sequence.Seq);
var dinucList = dinucCalc.GetDinucleotides();
return(View("~/Views/Seq/SeqCalc.cshtml"));
}
else
{
ViewBag.SeqCorrect = "false";
//MessageBox.Show("ACGT only!");
return(View("~/Views/Home/SeqInput.cshtml"));
}
}
public static void Main(string[] args)
{
Console.WriteLine("Oligonucleotides frq calculation.");
string seq = string.Empty;
//string fileName = @"/home/alvydas/Sequencies/H**o.sapience/Cromosome1.fasta";
//string fileName = @"/home/alvydas/Sequencies/Virus/Hepatitis.delta.fasta";
//string fileName = "//home//alvydas//Sequencies//Bacteria//Lactococcus.lactis.fasta";
//seq = "aaacagatcacccgctgagcgggttatctgtt";
seq = "aaaaacaagaatacaaccacgactagaagcaggagtataatcatgattcaacaccagcatccacccccgcctcgacgccggcgtctactcctgcttgaagacgaggatgcagccgcggctggaggcgggggtgtagtcgtggtttaatactagtattcatcctcgtcttgatgctggtgtttattcttgttt";
/*
* string fileName = @"/home/alvydas/Sequencies/Bacteria/Escherichia.coli.fasta";
*
* var fileStream = new FileStream(fileName, FileMode.Open, FileAccess.Read);
* using (var streamReader = new StreamReader(fileStream))
* {
* seq = streamReader.ReadToEnd().ToLower().Replace("\n", string.Empty);
* }
* Console.WriteLine(fileName);
* /*
* string [ ] mono = { "a" , "c" , "g" , "t" };
* foreach(var item1 in mono )
* {
* foreach ( var item2 in mono )
* {
* foreach ( var item3 in mono )
* {
* foreach ( var item4 in mono )
* {
* seq += item1 + item2 + item3 + item4;
* }
* }
* }
* }
*/
DinucCalc dinucCalc = new DinucCalc(seq);
var diCalc = dinucCalc.Calculation();
TrinucCalc trinucCalc = new TrinucCalc();
var triCalc = trinucCalc.Calculation("FromBoard", seq);
TetranucCalc tetranucCalc = new TetranucCalc(seq);
var tetraCalc = tetranucCalc.Calculation( );
}