/// <summary>
/// AminoAcidColorGroupsHeatMapTsv
/// </summary>
/// <returns></returns>
public List <SpreadsheetCell[]> SpreadsheetAminoAcidColorGroupsHeatMap(AminoAcidGroups.AminoAcidGroups.EnumAminoAcidGroups enumAminoAcidGroups)
{
lock (_lockAminoAcidToAminoAcid)
{
var matrix = AminoAcidToAminoAcid[(int)enumAminoAcidGroups];
var rows = new List <List <SpreadsheetCell> >();
var headerRowStrings = new List <SpreadsheetCell> {
new SpreadsheetCell()
};
for (var columnIndex = 0; columnIndex < matrix.GetLength(1); columnIndex++)
{
if (enumAminoAcidGroups == AminoAcidGroups.AminoAcidGroups.EnumAminoAcidGroups.AminoAcids)
{
headerRowStrings.Add(new SpreadsheetCell(AminoAcidConversions.AminoAcidNumberToCode1L(columnIndex + 1)));
}
else
{
headerRowStrings.Add(new SpreadsheetCell(columnIndex + 1));
}
}
rows.Add(headerRowStrings);
for (var rowIndex = 0; rowIndex < matrix.GetLength(0); rowIndex++)
{
var row = new List <SpreadsheetCell>();
if (enumAminoAcidGroups == AminoAcidGroups.AminoAcidGroups.EnumAminoAcidGroups.AminoAcids)
{
row.Add(new SpreadsheetCell(AminoAcidConversions.AminoAcidNumberToCode1L(rowIndex + 1)));
}
else
{
row.Add(new SpreadsheetCell(rowIndex + 1));
}
for (var columnIndex = 0; columnIndex < matrix.GetLength(1); columnIndex++)
{
row.Add(new SpreadsheetCell(matrix[rowIndex, columnIndex]));
}
rows.Add(row);
}
return(rows.Select(a => a.ToArray()).ToList());
}
}
public static SpreadsheetCell[] SpreadsheetTitleRow()
{
var titleRow = new List <SpreadsheetCell>();
titleRow.Add(new SpreadsheetCell("Protein ID"));
titleRow.Add(new SpreadsheetCell("Chain ID"));
int totalAminoAcids = AminoAcidTotals.TotalAminoAcids();
for (int index = 0; index < totalAminoAcids; index++)
{
titleRow.Add(new SpreadsheetCell(AminoAcidConversions.AminoAcidNumberToCode1L(index + 1)));
}
titleRow.Add(new SpreadsheetCell("Total"));
return(titleRow.ToArray());
}
/// <summary>
/// This method returns a spreadsheet heat map of the entire UniProt sequence database.
/// </summary>
/// <returns></returns>
public static List <SpreadsheetCell[]> UniProtHeatMapSpreadsheet()
{
var spreadsheet = new List <SpreadsheetCell[]>();
//spreadsheet.Add("HM Entire UniProt Database"); // filename / worksheet name
spreadsheet.Add(new[] { new SpreadsheetCell("Amino Acid Heat Map - Entire UniProt Database Composition (Converted To Matrix)") }); // spreadsheet title
//spreadsheet.Add(new[] {new SpreadsheetCell(string.Empty), });
//spreadsheet.Add(new[] {new SpreadsheetCell("Amino Acid Heat Map - Entire UniProt Database - A to Z") }); // section title
//spreadsheet.AddRange(AminoAcidCompositionAsMatrix().SpreadsheetAminoAcidColorGroupsHeatMap());
foreach (AminoAcidGroups.AminoAcidGroups.EnumAminoAcidGroups enumAminoAcidGroups in Enum.GetValues(typeof(AminoAcidGroups.AminoAcidGroups.EnumAminoAcidGroups)))
{
spreadsheet.Add(new[] { new SpreadsheetCell(string.Empty), });
spreadsheet.Add(new[] { new SpreadsheetCell("Amino Acid Heat Map - Entire UniProt Database - Acid Groups " + enumAminoAcidGroups) }); // section title
spreadsheet.AddRange(AminoAcidCompositionAsMatrix().SpreadsheetAminoAcidColorGroupsHeatMap(enumAminoAcidGroups));
}
spreadsheet.Add(new[] { new SpreadsheetCell(string.Empty), });
spreadsheet.Add(new[] { new SpreadsheetCell("Amino Acid Heat Map - Entire UniProt Database - Original Data - A to Z") }); // section title
AminoAcidChainComposition c = AminoAcidCompositionAsChain();
var chain = new List <SpreadsheetCell>();
chain.Add(new SpreadsheetCell(string.Empty));
for (int i = 0; i < AminoAcidTotals.TotalAminoAcids(); i++)
{
chain.Add(new SpreadsheetCell(AminoAcidConversions.AminoAcidNumberToCode1L(i + 1)));
}
spreadsheet.Add(chain.ToArray());
chain = new List <SpreadsheetCell>();
chain.Add(new SpreadsheetCell(string.Empty));
for (int i = 0; i < AminoAcidTotals.TotalAminoAcids(); i++)
{
chain.Add(new SpreadsheetCell(c.AminoAcidGroupsCount[(int)AminoAcidGroups.AminoAcidGroups.EnumAminoAcidGroups.AminoAcids][i]));
}
spreadsheet.Add(chain.ToArray());
foreach (AminoAcidGroups.AminoAcidGroups.EnumAminoAcidGroups enumAminoAcidGroups in Enum.GetValues(typeof(AminoAcidGroups.AminoAcidGroups.EnumAminoAcidGroups)))
{
spreadsheet.Add(new[] { new SpreadsheetCell(string.Empty), });
spreadsheet.Add(new[] { new SpreadsheetCell("Amino Acid Heat Map - Entire UniProt Database - Original Data - Acid Groups " + enumAminoAcidGroups) }); // section title
var chainGroups = new List <SpreadsheetCell>();
chainGroups.Add(new SpreadsheetCell(string.Empty));
for (int i = 0; i < AminoAcidGroups.AminoAcidGroups.GetTotalSubgroups(enumAminoAcidGroups); i++)
{
chainGroups.Add(new SpreadsheetCell((i + 1)));
}
spreadsheet.Add(chainGroups.ToArray());
chainGroups = new List <SpreadsheetCell>();
chainGroups.Add(new SpreadsheetCell(string.Empty));
for (int i = 0; i < AminoAcidGroups.AminoAcidGroups.GetTotalSubgroups(enumAminoAcidGroups); i++)
{
chainGroups.Add(new SpreadsheetCell(c.AminoAcidGroupsCount[(int)enumAminoAcidGroups][i]));
}
spreadsheet.Add(chainGroups.ToArray());
}
return(spreadsheet);
}