There is only so much signal normalization and correction (covered in Fundamentals of Base Calling series) that can be performed. The resulting base call particular towards the end of the reads.This can account up to 30% of the reads as observed in the long read data set that was released. Reads that must be filtered out due to poor signal profile*.In my opinion signal processing is the root cause of two problems: So yay to available source code and kudos goes to Ion Community contributors Mel, Mike and particularly Simon for answering all my questions in great detail. Without the source code, I would just be speculating in this blog series. cwf files (thanks flxlex), however the difference is that Life Technologies has made their signal processing OPEN through the release of their source code. The goal of Ion Torrent signal processing is summarize time series data (Figure 1) into just ONE value which is then stored in the 1.wells file. In the final part, I will discuss the major assumptions and where the model breaks down. In the second part, I will outline the high level process of signal processing which includes the key parameters that must be fitted. In this first part I will discuss the important aspects of the background and foreground model using key mathematical equations and pseudo code. This is the first part of a planned three part blog series on Ion Torrent signal processing.
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