Key resources table

REAGENT or RESOURCE	SOURCE	IDENTIFIER
Deposited data
Summary CNV-phenotype association statistics	This paper	10.5281/zenodo.7034987 https://data.broadinstitute.org/lohlab/HI-CNV/sumstats
UK Biobank	Bycroft et al. 2018 Nature	http://www.ukbiobank.ac.uk/
PennCNV calls within UK Biobank participants	Crawford et al. 2019 J. Med. Genet.	UK Biobank Return 1701
BioBank Japan	Nagai et al. 2017 J. Epidemiol.	https://humandbs.biosciencedbc.jp/en/hum0014-v26
SNP/indel pLoF gene burden summary statistics	Backman et al. 2021 Nature	https://www.ebi.ac.uk/gwas/publications/34662886
Software and algorithms
HI-CNV	This paper	10.5281/zenodo.7034987 https://data.broadinstitute.org/lohlab/HI-CNV/
BOLT-LMM	Loh et al. 2015 Nature Genetics; Loh et al. 2018 Nature Genetics	https://data.broadinstitute.org/alkesgroup/BOLT-LMM/
plink	Chang et al. 2015 GigaScience	https://www.cog-genomics.org/plink/
CNVnator	Abyzov et al. 2011 Genome Research	https://github.com/abyzovlab/CNVnator
DELLY	Rausch et al. 2012 Bioinformatics	https://github.com/dellytools/delly
R	The R Foundation	https://www.r-project.org
BEDTools	Quinlan and Hall 2010 Bioinformatics	https://github.com/arq5x/bedtools2/
Python	Python Software Foundation	https://www.python.org/