From 340578a3c9890e35f3fb8a28c436f195adc3e50a Mon Sep 17 00:00:00 2001 From: Sebastian Schoenherr Date: Wed, 17 Oct 2018 14:54:45 +0200 Subject: [PATCH] Update README.md --- README.md | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/README.md b/README.md index 7dddd41..35a94af 100644 --- a/README.md +++ b/README.md @@ -5,11 +5,11 @@ Mutation-Server is a Java library to detect heteroplasmic and homoplasmic sites It has been integrated in [mtDNA-Server](https://mtdna-server.uibk.ac.at). For scalability, Mutation-Server is parallelized using Hadoop MapReduce but also available as a standalone tool. ## Standalone Usage -You can run Mutation-Server as a standalone tool starting with BAM files and detecting heteroplasmic and homoplasmic sites. +You can run Mutation-Server as a standalone tool starting with BAM files and detecting heteroplasmic and homoplasmic sites. By default BAQ is set (``--noBaq`` otherwise) and no indels (beta feature, ``--indel`` otherwise) are called. ``` -wget https://github.com/seppinho/mutation-server/releases/download/v1.1.8/mutation-server-1.1.8.jar +wget https://github.com/seppinho/mutation-server/releases/download/v1.1.9/mutation-server-1.1.9.jar -java -jar mutation-server-1.1.8.jar analyse-local --input --output --reference --level 0.01 +java -jar mutation-server-1.1.9.jar analyse-local --input --output --reference --level 0.01 ``` ## Output Format