From 73c6a06bd0ae7532a8ac290fef8a1ce737dcd50e Mon Sep 17 00:00:00 2001 From: Jocelyn Penington Date: Wed, 18 Sep 2024 14:13:42 +1000 Subject: [PATCH] modify nextflow.config for Merck validation --- nextflow.config | 12 ++++++------ 1 file changed, 6 insertions(+), 6 deletions(-) diff --git a/nextflow.config b/nextflow.config index cd2dd11..02244b6 100644 --- a/nextflow.config +++ b/nextflow.config @@ -1,16 +1,16 @@ params { // Required Parameters - outdir = "/vast/scratch/users/$USER/PaolaIGP3results" - input_seq_path = "/stornext/Bioinf/data/bioinf-data/Papenfuss_lab/projects/malaria/cowman_lab/drug_resistance/iGP3_Paola2024/sequence_data" - input_file = "/stornext/Bioinf/data/bioinf-data/Papenfuss_lab/projects/malaria/cowman_lab/drug_resistance/iGP3_Paola2024/samplegroup.txt" + outdir = "/vast/projects/malaria/mk7602validation/interactive" + input_seq_path = "/vast/projects/malaria/mk7602validation/sequence_data" + input_file = "/vast/projects/malaria/mk7602validation/singlegroup.txt" // Copynumber Plot Parameters bin_CNfull = 5 bin_CNroi = 1 lowerbound_fullCN = 0.2 upperbound_fullCN = 36 - chr_CNroi = "07" - start_CNroi = 410 - end_CNroi = 416 + chr_CNroi = "02" + start_CNroi = 100 + end_CNroi = 600 BCFqualcrit = 50 critsamplecount = 1