From e0a9608478a3c3f1a2c937fa02df539a6c8a10dc Mon Sep 17 00:00:00 2001 From: Geert van Geest Date: Tue, 27 Sep 2022 15:36:34 +0200 Subject: [PATCH] fixes typo in snippet --- docs/day2/filtering_evaluation.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/day2/filtering_evaluation.md b/docs/day2/filtering_evaluation.md index b2d9ae2..61b2453 100644 --- a/docs/day2/filtering_evaluation.md +++ b/docs/day2/filtering_evaluation.md @@ -24,7 +24,7 @@ Our dataset is too small to apply VQSR. We will therefore do hard filtering inst First, filtering thresholds are usually different for SNPs and INDELs. Therefore, we will split `trio.vcf` into two vcfs, one containg only SNPs, and one containing only INDELs. You can extract all the SNP records in our trio vcf like this: ```sh -cd ~/workdir +cd ~/workdir/results gatk SelectVariants \ --variant variants/trio.vcf \