VISOR
VISOR: haplotype-aware structural variants simulator for short, long and linked reads
VISOR is available to be installed from source or as a Docker container. Please have a look at VISOR documentation for any installation or usage questions.
Citation
Are you using VISOR in your works? Please cite:
Davide Bolognini, Ashley Sanders, Jan O Korbel, Alberto Magi, Vladimir Benes, Tobias Rausch. VISOR: a versatile haplotype-aware structural variant simulator for short and long read sequencing. Bioinformatics. 2019 Oct 7.
Related works
VISOR has been applied to simulate Strand-seq data in:
Ashley D Sanders, Sascha Meiers, Maryam Ghareghani, David Porubsky, Hyobin Jeong, M Alexandra CC van Vliet, Tobias Rausch, Paulina Richter-Pechańska, Joachim B Kunz, Silvia Jenni, Davide Bolognini, Gabriel MC Longo, Benjamin Raeder, Venla Kinanen, Jürgen Zimmermann, Vladimir Benes, Martin Schrappe, Balca R Mardin, Andreas E Kulozik, Beat Bornhauser, Jean-Pierre Bourquin, Tobias Marschall, Jan O Korbel. Single-cell analysis of structural variations and complex rearrangements with tri-channel processing. Nature Biotechnology. 2019 Dec 23.
VISOR has been applied to simulate repeat contractions/expansions in long-read data, as described in:
Davide Bolognini, Alberto Magi, Vladimir Benes, Jan O Korbel, Tobias Rausch. TRiCoLOR: tandem repeat profiling using whole-genome long-read sequencing data. GigaScience. 2020 Oct 7.
VISOR has been applied to simulate SVs in long-read data, as described in:
Davide Bolognini, Alberto Magi. Evaluation of Germline Structural Variant Calling Methods for Nanopore Sequencing Data. Front. Genet. 2021 Nov 18.