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freeIbis by grenaud

freeIbis

An efficient basecaller for Illumina sequencers with calibrated quality scores

View the Project on GitHub grenaud/freeIbis

About.

freeIbis is a basecaller for Illumina sequencers based on Support Vector Machines (SVM). This approach produces more accurate basecalls than the default Illumina basecaller. freeIbis can use the control sequences to calibrate the output of the SVM to produce directly calibrated quality scores. For instance, freeIbis can produce quality scores that correlate highly with observed ones:

Citing

The paper describing our algorithm was published in Bioinformatics:

  
Gabriel Renaud, Martin Kircher, Udo Stenzel, and Janet Kelso
freeIbis: an efficient basecaller with calibrated quality scores for Illumina sequencers
Bioinformatics (2013) 29 (9): 1208-1209 first published online March 6, 2013 doi:10.1093/bioinformatics/btt117

Contact

Please contact Gabriel Renaud ( @grenaud ) for further information: