20 citations · 52 across the 18 of their papers we have counts for
Showing 2016Show all
3 papers · 1 filter
cs.CC2016★ 5 cited
Hardness of Covering Alignment: Phase Transition in Post-Sequence Genomics
Romeo Rizzi, Massimo Cairo, Veli Mäkinen +2
Covering alignment problems arise from recent developments in genomics; so called pan-genome graphs are replacing reference genomes, and advances in haplotyping enable full content…
cs.DS2016
Linear-time string indexing and analysis in small space
Djamal Belazzougui, Fabio Cunial, Juha Kärkkäinen +1
The field of succinct data structures has flourished over the last 16 years. Starting from the compressed suffix array (CSA) by Grossi and Vitter (STOC 2000) and the FM-index by Fe…
cs.DS2016
Fully Dynamic de Bruijn Graphs
Djamal Belazzougui, Travis Gagie, Veli Mäkinen +1
We present a space- and time-efficient fully dynamic implementation de Bruijn graphs, which can also support fixed-length jumbled pattern matching.