Hi folks,
we have written a small paper about microindel detection in short sequence reads. There is a little twist in it: the position of an indel is often not unambiguously defined by a single position (think of homopolymers). We used a simple algorithm to define an unambiguous equivalent indel region (eir). Using the eir, you can increase the sensitivity of indel detection. Its very simple to implement. Folks interested in microindel detection should think about analysing the eir in their sequence alignments:
best,
peter
we have written a small paper about microindel detection in short sequence reads. There is a little twist in it: the position of an indel is often not unambiguously defined by a single position (think of homopolymers). We used a simple algorithm to define an unambiguous equivalent indel region (eir). Using the eir, you can increase the sensitivity of indel detection. Its very simple to implement. Folks interested in microindel detection should think about analysing the eir in their sequence alignments:
best,
peter
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