Rautiainen

Software

Verkko

Verkko is a hybrid genome assembly pipeline developed for telomere-to-telomere assembly of long accurate (e.g. PacBio HiFi) and ultra-long (e.g. Oxford Nanopore UL) reads. Verkko is Finnish for net, mesh and graph.

News posts

Verkko2 is released!

January 2, 2025

Publications

see all 7 publications with Mikko Rautiainen

Verkko2 integrates proximity ligation data with long-read De Bruijn graphs for efficient telomere-to-telomere genome assembly, phasing, and scaffolding

Genome Research, May 19, 2025

Antipov D, Rautiainen M, Nurk S, Walenz BP, Solar SJ, Phillippy AM, Koren S

Complex genetic variation in nearly complete human genomes

bioRxiv, September 25, 2024

Logsdon GA … Koren S … Phillippy AM … Rautiainen M … Dilthey AT … Marschall T

The variation and evolution of complete human centromeres

Nature, April 3, 2024

Logsdon GA, Rozanski AN, Ryabov F, Potapova T, Shepelev VA, Catacchio CR, Porubsky D, Mao Y, Yoo D, Rautiainen M, Koren S, Nurk S, Lucas JK, Hoekzema K, Munson KM, Gerton JL, Phillippy AM, Ventura M, Alexandrov IA, Eichler EE

The complete sequence of a human Y chromosome

Nature, August 23, 2023

Rhie A, Nurk S … Koren S, Rautiainen M … Hansen NF … Mc Cartney AM … Walenz BP … Phillippy AM

GIS

Mikko Rautiainen, PhD

Postdoctoral Fellow (alum)

Verkko

Verkko2 is released!