From 067a448a77b824d50bbfd8a265f1c8dd78bf7a50 Mon Sep 17 00:00:00 2001 From: Jesse Marks Date: Wed, 20 Nov 2024 14:11:15 -0600 Subject: [PATCH] Revert "report: Remove the sentence about low replicate concordance (issue #353)" --- src/cgr_gwas_qc/reporting/templates/qc_report.md.j2 | 1 + 1 file changed, 1 insertion(+) diff --git a/src/cgr_gwas_qc/reporting/templates/qc_report.md.j2 b/src/cgr_gwas_qc/reporting/templates/qc_report.md.j2 index 1bc9bd2d..42aad982 100644 --- a/src/cgr_gwas_qc/reporting/templates/qc_report.md.j2 +++ b/src/cgr_gwas_qc/reporting/templates/qc_report.md.j2 @@ -83,6 +83,7 @@ Internal QC samples (from the 1000G project) are added to each 96-well plate to Similar to internal QC controls, technical replicates of study samples are included in every project to assess overall quality by comparing replicate concordance (proportion IBS2). In this project the minimum concordance of replicates was {{ sample_qc.expected_replicates.min_concordance | toPct | numFormat }}% and the mean concordance was {{ sample_qc.expected_replicates.mean_concordance | toPct | numFormat }}%. +We removed {{ sample_qc.expected_replicates.num_low_concordance | numFormat }} study samples with low replicate concordance. ### Replicate Pruning (Subject Representative)