Structural Variant Machine (SV-M)
Summary
To accurately predict deletions and insertions we developed a tool called Structural Variant Machine (SV-M). This tool is using a Support Vector Machine (SVM) to then predict potential indel candidates as true or false ones. Further we are working on a single pipeline to simplfy the whole process of predicting indels.
Code
The code is written in C/C++. The source can be downloaded from our GitHub repository external pageherecall_made.
Supplementary data
The supplementary data contains the Sanger validated training data and all annotated indels and potential gene losses. The data can be downloaded Downloadhere (ZIP, 5 MB)vertical_align_bottom.
Publication
Accurate indel prediction using paired-end short reads
Dominik G. Grimm, Jörg Hagmann, Daniel Koenig, Detlef Weigel and Karsten Borgwardt
BMC Genomics 2013, 14(1): 132-141
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