Genotyping common, large structural variations in 5,202 genomes using pangenomes, the Giraffe mapper, and the vg toolkit release_z3lddejn45bvtd7634zpqy43sy

by Jouni Sirén, Jean Monlong, Xian Chang, Adam M Novak, Jordan Eizenga, Charles Markello, Jonas Andreas Sibbesen, Glenn Hickey, Pi-Chuan Chang, Andrew Carroll, David Haussler, Erik Garrison (+1 others)

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Enabling multiscale variation analysis with genome graphs [post]
Brice Letcher, Martin Hunt, Zamin Iqbal
2021    unpublished
doi:10.1101/2021.02.03.429603 
web.archive.org [PDF]

via crossref
Combined use of Oxford Nanopore and Illumina sequencing yields insights into soybean structural variation biology [post]
Marc-André Lemay, Jonas A. Sibbesen, Davoud Torkamaneh, Jérémie Hamel, Roger C. Levesque, François Belzile
2021    unpublished
doi:10.1101/2021.08.26.457816 
web.archive.org [PDF]

via crossref
Towards population-scale long-read sequencing
Wouter De Coster, Matthias H. Weissensteiner, Fritz J. Sedlazeck
2021   Nature reviews genetics
doi:10.1038/s41576-021-00367-3  pmcid:PMC8161719  pmid:34050336 
web.archive.org [PDF]

via crossref
Methods and Developments in Graphical Pangenomics
Joseph Outten, Andrew Warren
2021   Journal of the Indian Institute of Science
doi:10.1007/s41745-021-00255-z  pmcid:PMC8384392  pmid:34456520 

via crossref
Novel functional sequences uncovered through a bovine multiassembly graph
Danang Crysnanto, Alexander S. Leonard, Zih-Hua Fang, Hubert Pausch
2021   Proceedings of the National Academy of Sciences of the United States of America
doi:10.1073/pnas.2101056118  pmcid:PMC8157972  pmid:33972446 

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Decision letter: Local adaptation and archaic introgression shape global diversity at human structural variant loci [peer_review]
George H Perry
2021    unpublished
doi:10.7554/elife.67615.sa1 
web.archive.org [PDF]

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Local adaptation and archaic introgression shape global diversity at human structural variant loci [post]
Stephanie M. Yan, Rachel M. Sherman, Dylan J. Taylor, Divya R. Nair, Andrew N. Bortvin, Michael C. Schatz, Rajiv C. McCoy
2021    unpublished
doi:10.1101/2021.01.26.428314 
web.archive.org [PDF]

via grobid
Mining Thousands of Genomes to Classify Somatic and Pathogenic Structural Variants [post]
Ryan Layer, Fritz Sedlazeck, Brent Pedersen, Aaron Quinlan
2021    unpublished
doi:10.21203/rs.3.rs-456227/v1 
web.archive.org [PDF]

via fatcat-pubmed
PanSVR: Pan-Genome Augmented Short Read Realignment for Sensitive Detection of Structural Variations
Gaoyang Li, Tao Jiang, Junyi Li, Yadong Wang
2021   Frontiers in Genetics
doi:10.3389/fgene.2021.731515  pmcid:PMC8417358  pmid:34490049 

via fatcat-pubmed
Gramtools enables multiscale variation analysis with genome graphs
Brice Letcher, Martin Hunt, Zamin Iqbal
2021   Genome Biology
doi:10.1186/s13059-021-02474-0  pmcid:PMC8420074  pmid:34488837 
web.archive.org [PDF]

via crossref
Novel functional sequences uncovered through a bovine multi-assembly graph [post]
Danang Crysnanto, Alexander S. Leonard, Zih-Hua Fang, Hubert Pausch
2021    unpublished
doi:10.1101/2021.01.08.425845 
web.archive.org [PDF]

via crossref
Virtue as the mean: Pan-human consensus genome significantly improves the accuracy of RNA-seq analyses [post]
Benjamin Kaminow, Sara Ballouz, Jesse Gillis, Alexander Dobin
2020    unpublished
doi:10.1101/2020.12.22.423111 
web.archive.org [PDF]