sequencing reads simulation

lyz1030 · 09-20-2012, 12:27 PM

Hi,

Can anyone explain the results of wgsim of me? What does the character 'R', 'M', 'Y' stands for in the third column? What is the meaning of the second column? In addition, if I have two haplotypes of a individual (with konwn heterozygous and homozygous variants), how can simulate the sequencing reads of this individual?

Thanks

20 62504 A R +

20 64077 A R +

20 64771 A M +

20 67086 C Y +

20 67502 G C -

20 68336 T G -

20 68678 A R +

20 70639 T Y +

20 70788 T W +

20 73011 T Y +

20 75088 T W +

20 76026 T W +

20 76306 C Y +

nilshomer · 09-26-2012, 08:53 AM

They are IUPAC codes, and most likely heterozygous variants.

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09-20-2012, 12:27 PM	#1
lyz1030 Member Location: USA Join Date: Mar 2011 Posts: 33	sequencing reads simulation Hi, Can anyone explain the results of wgsim of me? What does the character 'R', 'M', 'Y' stands for in the third column? What is the meaning of the second column? In addition, if I have two haplotypes of a individual (with konwn heterozygous and homozygous variants), how can simulate the sequencing reads of this individual? Thanks 20 62504 A R + 20 64077 A R + 20 64771 A M + 20 67086 C Y + 20 67502 G C - 20 68336 T G - 20 68678 A R + 20 70639 T Y + 20 70788 T W + 20 73011 T Y + 20 75088 T W + 20 76026 T W + 20 76306 C Y +

09-26-2012, 08:53 AM	#2
nilshomer Nils Homer Location: Boston, MA, USA Join Date: Nov 2008 Posts: 1,285	They are IUPAC codes, and most likely heterozygous variants.