Biology subjects

Kiil, K.

Publications and source records attributed to Kiil, K..

2 recordsLinked to original sources

bioRxiv2018

CleanRecomb, a quick tool for recombination detection in SNP based cluster analysis

We present CleanRecomb, a tool to quickly filter a SNP matrix for likely recombination events.\n\nMethodThe method evaluates segments with identical SNP profiles over the genome, based on the assumption that SNPs in the absense of recombination events are uniformly distributed across the genome. The method is evaluated on a set of 9 ST200 E. coli genome sequences.\n\nResultsThe detected recombination events coincide with regions of elevated SNP density.

bioinformatics↗

bioRxiv2018

ReadFilter - Filtering reads of interest for quicker downstream analysis

Whole-genome sequencing is becoming the method of choice but provides redundant data for many tasks. ReadFilter (https://github.com/ssi-dk/serum_readfilter) is offered as a way to improve run time of these tasks by rapidly filtering reads against user-specified sequences in order to work with a small fraction of original reads while maintaining accuracy. This can noticeably reduce mapping time and substantially reduce de novo assembly time.

bioinformatics↗