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freeIbis | A basecaller with calibrated quality scores for Illumina sequencers

An efficient basecaller for Illumina sequencers with calibrated quality scores. freeIbis offers significant improvements in sequence accuracy owing to the use of a novel multiclass support vector machine (SVM) algorithm. 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.

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freeIbis classification

freeIbis specifications

Unique identifier:
Command line interface
Input format:
INT, CIF with Bustard reads
Operating system:
Computer skills:
Software type:
Restrictions to use:
Biological technology:
Programming languages:
C, Python

freeIbis distribution


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freeIbis support



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Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany

Funding source(s)

The Max Planck Society

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