From 008235de5c60bbe1e0147d7927dbb9345edae0ea Mon Sep 17 00:00:00 2001 From: Migle Gabrielaite Date: Thu, 5 Sep 2019 15:17:41 +0200 Subject: [PATCH 1/2] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 0b1d6d3..7a01a64 100644 --- a/README.md +++ b/README.md @@ -81,7 +81,7 @@ If there are less than 4 samples, RAxML phylogenetic analysis and ClonalFrame re ## Running the pipeline -In order to run the pipeline anaconda3 (version 4.0.0) has to be available. Snakemake is started from its directory directory: +In order to run the pipeline anaconda3 (version 4.0.0) has to be available. Snakemake is started from its directory: ``` -j option allows to choose the number of threads (1-28) used for the analysis (default:1) From 85464a6348b44b494c989ed5d1d9fbe49bdd0f21 Mon Sep 17 00:00:00 2001 From: Migle Gabrielaite Date: Tue, 24 Sep 2019 16:00:14 +0200 Subject: [PATCH 2/2] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 7a01a64..087b7bb 100644 --- a/README.md +++ b/README.md @@ -70,7 +70,7 @@ sample_dir: "/home/project_name/fastq" output_dir: "/home/project_name/AX01" ref: "/home/reference_genomes/GCF_001457475.1_NCTC10807_genomic.gbk" name: "AX01" -ClonalFrame: True +ClonalFrameML: True ``` ## Input file requirements