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Update billion count icon in docs and other updates #1047

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merged 9 commits into from
Nov 3, 2023
Merged

Update billion count icon in docs and other updates #1047

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b5f83aa
Add missing species in vcf config
nakib103 Oct 19, 2023
23217bc
Update billion count color and text
nakib103 Oct 19, 2023
67ee094
Add checking of frequency beside genotype
nakib103 Oct 20, 2023
2420396
Fix syntax error in clin_significance script
nakib103 Oct 20, 2023
6fe3163
Added e111 data file for vcf species docs
nakib103 Oct 24, 2023
19b3157
use `chomp` instead of `chop`
nakib103 Oct 30, 2023
af4f89c
Update billion count to be greated than 10
nakib103 Oct 30, 2023
ea687fb
bugfix: missing frequency studies for human
nakib103 Nov 1, 2023
8f71a61
Hard-coded adding of Topmed and NCBI-ALPHA frequency sources
nakib103 Nov 1, 2023
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4 changes: 4 additions & 0 deletions scripts/docs/generate_population_table.pl
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Original file line number Diff line number Diff line change
Expand Up @@ -379,6 +379,10 @@ sub get_vcf_content_types {
if ( ($info_field =~ /AF=/) || ($info_field =~ /AC=/ && $info_field =~ /AN=/) ) {
push @types, "frequency";
}
# a hard-coded check for NCBI-ALPHA and TOPMED as they have very special field for frequency
if ( ($info_field =~ /AN_SAMN/) || ($info_field =~ /TOPMED=/) ) {
push @types, "frequency";
}
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}

return @types;
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