This folder contains ROH and Local Ancestry calls from Szpiech et al. (2019) AJHG 105:747-762. https://doi.org/10.1016/j.ajhg.2019.08.011

joint.1441.2015_1030.chraut.snps.passed.roh.anc2.bed.gz contains ROH calls from GARLIC v1.1.4 in BED format, although some columns may violate UCSC BED data type requirements. Format is as follows:

track name="Ind: indID Pop:popID ROH from GARLIC v1.1.4" visibility=2 itemRgb="On"
<chromosome>	<start>	<Rend>	<size class>	<length>	<ancestry |-delimted>	<proportion ancestry |-delimited>	0	<RGB for size class>

local ancestry codes are "unphased" and represent 1 - EUR, 2 - AFR, 3 - NAM


merged_ref_joint1484_from_latplus_biallelic_filtered_chraut_phased.3way.ancestry.imputed.capped.bed.gz contains local ancestry calls from RFMix in BED format,  although some columns may violate UCSC BED data type requirements. Format is as follows:

track name="Ind: indID Pop:popID Admixture" description="Ind: indID Pop:popID Admixture from RFMix" visibility=2 itemRgb="On"
<chromosome>	<start>	<end>	<ancestry>	<length>	.	0	0	<RGB for ancestry>

local ancestry codes are "unphased" and represent 1 - EUR, 2 - AFR, 3 - NAM
