Anyone used Cisgenome for Affymetric Tiling Array Data??
Hi, I am fairly new to this forum and is also new to the Bioinformatic world. I am trying to use Cisgenome to analyze our Tiling array data. In 2006, we used the Tilemap v1 to analyze our data, and now in 2010, we are trying reproduce the same output using Cisgenome (Tilemap v2).
However, I have some trouble about understand the parameters in the "PEAK DETECTION" function. I want to find as many peaks as possible with the control length, for example >100bp or <100bp, and we can sort them out later, cause we want to detect all regions that might be interested to us.
So let me rephrase the question, Does anyone have an experience using Cisgenome to analyze Tiling Array data, and able to provide some detailed inside to help us understand the parameters??
Thank you, please forgive me to maybe ask a very un-Bioinformatic professional question.
Hsiao.
However, I have some trouble about understand the parameters in the "PEAK DETECTION" function. I want to find as many peaks as possible with the control length, for example >100bp or <100bp, and we can sort them out later, cause we want to detect all regions that might be interested to us.
So let me rephrase the question, Does anyone have an experience using Cisgenome to analyze Tiling Array data, and able to provide some detailed inside to help us understand the parameters??
Thank you, please forgive me to maybe ask a very un-Bioinformatic professional question.
Hsiao.