RT Journal Article
SR Electronic
T1 GenomeScope: Fast reference-free genome profiling from short reads
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 075978
DO 10.1101/075978
A1 Vurture, Gregory W.
A1 Sedlazeck, Fritz J.
A1 Nattestad, Maria
A1 Underwood, Charles J.
A1 Fang, Han
A1 Gurtowski, James
A1 Schatz, Michael C.
YR 2016
UL http://biorxiv.org/content/early/2016/09/19/075978.abstract
AB Summary GenomeScope is an open-source web tool to rapidly estimate the overall characteristics of a genome, including genome size, heterozygosity rate, and repeat content from unprocessed short reads. These features are essential for studying genome evolution, and help to choose parameters for downstream analysis. We demonstrate its accuracy on 324 simulated and 16 real datasets with a wide range in genome sizes, heterozygosity levels, and error rates.Availability and Implementation http://qb.cshl.edu/genomescope/, https://github.com/schatzlab/genomescope.gitContact mschatz@jhu.eduSupplementary information Supplementary data are available at Bioinformatics online.