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setGenoInput() fails for VCF with rangestoIncludeFile: markerInfo is undefined

Status: Open.

#207 In saigegit/SAIGE;

· ilarsf opened on Jul 28, 2026

Default Step 2 Settings (is_noadjCov=TRUE) produce incorrect p-values for variants with AF > 0.5

Status: Open.

#206 In saigegit/SAIGE;

· dannydelr0550 opened on Jul 26, 2026

Step 1 documentation allele count calculation

Status: Open.

#203 In saigegit/SAIGE;

· njosyula opened on Jun 3, 2026

SE overestimation for extreme p-values due to incorrect log-p handling in R::qnorm call (regression in C++ rewrite)

Status: Open.

#202 In saigegit/SAIGE;

· DDochtermann opened on May 26, 2026

Saige v1.4.3 producing Malformed output: some rows have incorrect number of fields

Status: Open.

#201 In saigegit/SAIGE;

· aokulabasile opened on May 7, 2026

Feature request: Gzip output

Status: Open.

#200 In saigegit/SAIGE;

· pettyalex opened on Apr 15, 2026

Feature Request: Add pgen support to Step1

Status: Open.

#199 In saigegit/SAIGE;

· jjfarrell opened on Feb 13, 2026

Possible bug: variance inflated for common variants with default settings

Status: Open.

#197 In saigegit/SAIGE;

· frhl opened on Feb 5, 2026

what's the difference between Is.SPA=false and Is.SPA=FALSE (and Is.SPA=true and Is.SPA=TRUE)?

Status: Open.

#196 In saigegit/SAIGE;

· Xuemin-Wang opened on Feb 4, 2026

SAIGE gives extreme p-values while other software don't

Status: Open.

#195 In saigegit/SAIGE;

· olivierlabayle opened on Feb 3, 2026

mismatch in example_binary_sparseGRM

Status: Open.

#193 In saigegit/SAIGE;

· dagherlab opened on Jan 19, 2026

Please tag releases

Status: Open.

#192 In saigegit/SAIGE;

· ccoulombe opened on Jan 14, 2026