/// <summary>
/// convert sequence basket (repeats and hairpins) to region indexes
/// </summary>
/// <param name="sourceList">the source sequence basket (list of sequences)</param>
/// <returns>the list of regions of the source basket</returns>
protected static iDnaRegionIndexList SequenceListToRegionList(IEnumerable <iDnaSequence> sourceList)
{
iDnaRegionIndexList list = new iDnaRegionIndexList();
if (sourceList == null || sourceList.Count() <= 0)
{
return(list);
}
foreach (var seq in sourceList)
{
int min = seq.Min(i => i.Index),
max = seq.Max(i => i.Index);
list.Add(new iDnaRegionIndex(seq.Name, min, max, seq.SequenceFileInfo)
{
Occurrences = seq._nOccurrences
});
}
return(list);
}
/// <summary>
/// rebuild sequence basket (repeats and hairpins) from region indexes
/// </summary>
/// <param name="sourceSequence">the parent sequence to which the basket should be attached</param>
/// <param name="sourceList">the region index list</param>
/// <returns>the list of sequence basket</returns>
protected static List <iDnaSequence> RegionListToSequenceList(iDnaSequence sourceSequence, iDnaRegionIndexList sourceList)
{
List <iDnaSequence> list = new List <iDnaSequence>();
if (sourceList == null || sourceList.Count() <= 0 || sourceSequence == null)
{
return(list);
}
foreach (var region in sourceList)
{
var nodes = sourceSequence.Where(i => i.Index >= region.MinValue && i.Index <= region.MaxValue);
if (nodes == null || nodes.Count() <= 0)
{
continue;
}
list.Add(new iDnaSequence(region.Name, nodes, refOnly: true, nOccurrences: region.Occurrences));
}
return(list);
}
