From a3c452de8b0f5f5fa7baf66de4042d0f291accee Mon Sep 17 00:00:00 2001 From: basti Date: Mon, 10 Dec 2018 16:29:49 +0100 Subject: [PATCH] Updated README. --- README.md | 9 +++++---- 1 file changed, 5 insertions(+), 4 deletions(-) diff --git a/README.md b/README.md index 203d55b..62695a7 100644 --- a/README.md +++ b/README.md @@ -83,15 +83,16 @@ Optional arguments: --interation INT Number of iterations done by glam2. More Interations: better results, higher runtime. (Default: 10000) --tomtom_treshold float Threshold for similarity score. (Default: 0.01) - Motif clustering: + Motif clustering: --edge_weight INT Minimum weight of edges in motif-cluster-graph (Default: 5) - --motif_similarity_thresh FLOAT threshold for motif similarity score (Default: 0.00001) + --motif_similarity_thresh FLOAT threshold for motif similarity score (Default: 0.00001) - Creating GTF: - --tissues STRING Filter for tissue/category activity categorys as in JSON config (Default: None) + Creating GTF: + --tissues STRING Filter for tissue/category activity categorys as in JSON config (Default: None) --wd PATH current working directory for the script (default: ".") --dir PATH directory for saved Ensembl / UCSC file (default: "./data/") --out PATH directory for the output GTF (default: ".") + All arguments can be set in the configuration files. ```