Antonio Blanca

Estimation of substitution and indel rates via k-mer statistics

This paper develops k-mer-based estimators for substitution, insertion, and deletion mutation rates, showing improved accuracy when accounting for indels in mutation models.

A k-mer-based estimator of the substitution rate between repetitive sequences

This paper introduces a k-mer-based estimator for substitution rates between repetitive sequences, showing it remains accurate for repetitive genomic regions like centromeres.

The minimizer Jaccard estimator is biased and inconsistent

The paper shows that the minimizer Jaccard estimator is biased and inconsistent, affecting the accuracy of sequence similarity estimation and a read mapping tool.

The statistics of k-mers from a sequence undergoing a simple mutation process without spurious matches

The paper analyzes the statistical properties of k-mers under a mutation process and develops hypothesis tests and confidence intervals for mutation rates using k-mer counts and Jaccard similarity.