Genome-wide homozygosity in Example CS - standard analysis

Click on a chromosome to zoom in.

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score	chr	from (bp)	to (bp)	from SNP	to SNP	build 37
broad - use this when you expect some genetic heterogeneity
320	6	53808979	65533066	rs7766181	rs10498828	region	genotypes
266	11	37758393	39735014	rs1515038	rs769818	region	genotypes
258	2	194591485	195643802	rs1011079	rs801340	region	genotypes
narrow - use this when all patients are in the same family
320	6	53808979	65533066	rs7766181	rs10498828	region	genotypes
266	11	37758393	39735014	rs1515038	rs769818	region	genotypes
258	2	194591485	195643802	rs1011079	rs801340	region	genotypes

change threshold

0.99 x max 0.9 x max 0.8 x max 0.7 x max 0.6 x max 0.5 x max

call GeneDistiller build 37

with all narrow broad regions at once

create files for Alohomora
flanking region [bp] allele frequencies from all samples allele frequencies from controls allele frequencies equally distributed narrow regions broad regions

create a BED file build 37
complete homozygous regions shown here		narrow regions broad regions
complete genes within these only exons	flanked by bases on each side.

analysis settings
project_name	Example CS	change name
analysis_name	standard analysis	change name
analysis_description	PubMed
max_block_length	80
max_score	320
allele_frequencies	controls
user_login	examples
cases	3541,3589,3593,3624
controls	3538,3539,3540,3542,3592

retrieve homozyosity scores