From e52f9afb5892627b0477d0fb4f12ed0740d4b903 Mon Sep 17 00:00:00 2001 From: Celine Mercier Date: Wed, 28 Apr 2021 00:54:16 +0200 Subject: [PATCH] Update Wolf tutorial with the OBITools3 --- Wolf-tutorial-with-the-OBITools3.md | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/Wolf-tutorial-with-the-OBITools3.md b/Wolf-tutorial-with-the-OBITools3.md index 82b22a9..ed31ca4 100644 --- a/Wolf-tutorial-with-the-OBITools3.md +++ b/Wolf-tutorial-with-the-OBITools3.md @@ -53,11 +53,13 @@ And unzip it: obi alignpairedend -R wolf/reads2 wolf/reads1 - > aligned_reads.fastq +### 3. Remove sequence records with a low overlap alignment score: + We can check the average alignment score (corresponding approximately to the similarity between the sequences in the overlap): obi stats -a score_norm wolf/aligned_reads -### 3. Remove sequence records with a low overlap alignment score: +And keep only sequences with a high overlap alignment score: obi grep -p "sequence['score_norm'] > 0.8" wolf/aligned_reads wolf/good_sequences