Hi Dave,
that is right. The manual of Roche's AVA software says: "The automatic
Variant detection does not currently report insertions or monomer
deletions shorter than 3 bases." At this time, the R453Plus1Toolbox does
not implement an indel calling algorithm but relies on the results
reported by the AVA software.
Since it seems that Roche is not going to solve this issue, we have this
topic on our to-do list for our package.
Best,
Hans-Ulrich
On 16/02/11 13:43, David A. wrote:
Hi, I have found a package called R453Plus1Toolbox for analysis of Roche's
sequencing data. As far as I know, using AVA, 1bp indels are filtered off fro
mthe results to avoid false positives. They can be seen by going to the
flowgrams of the region, but they are not part of the output table. Does anyone
know if R453Plus1Toolbox can detect them?
Thanks,
Dave
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Hans-Ulrich Klein
Institute of Medical Informatics
University of Münster
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