From 8d36274dfa8295f04a2cd0085fae27424d83be95 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Re=CC=81mi=20DENISE?= <remi.denise@pasteur.fr> Date: Fri, 1 Mar 2019 13:29:21 +0100 Subject: [PATCH] Initial commit --- README.md | 12 ++++++------ 1 file changed, 6 insertions(+), 6 deletions(-) diff --git a/README.md b/README.md index c88b802..642ae24 100644 --- a/README.md +++ b/README.md @@ -8,28 +8,28 @@ To use correctly the model you need to run this command line : ## Initial models (stringent) -For T2SS Tad T4aP T4bP MSH ComM +For T2SS Tad T4aP ComM ``` -macsyfinder -w 4 -d DEF_TFF-SF_final/ -p profiles_TFF-SF_final/ -o macsyfinder_T2SS-Tad-T4P-T4bP-MSH-ComM --db-type ordered_replicon --sequence-db sequence.fasta T2SS Tad T4P T4bP MSH ComM +macsyfinder -w 4 -d DEF_TFF-SF_stringent/ -p profiles_TFF-SF_stringent/ -o macsyfinder_T2SS-Tad-T4P-T4bP-MSH-ComM --db-type ordered_replicon --sequence-db sequence.fasta T2SS Tad T4P ComM ``` For Archaeal-T4P ``` -macsyfinder -w 4 -d DEF_TFF-SF_final/ -p profiles_TFF-SF_final/ -o macsyfinder_Archaeal-T4P --db-type ordered_replicon --sequence-db sequence.fasta Archaeal-T4P +macsyfinder -w 4 -d DEF_TFF-SF_stringent/ -p profiles_TFF-SF_stringent/ -o macsyfinder_Archaeal-T4P --db-type ordered_replicon --sequence-db sequence.fasta Archaeal-T4P ``` ## Final models -For T2SS Tad T4aP ComM +For T2SS Tad T4aP T4bP MSH ComM ``` -macsyfinder -w 4 -d DEF_TFF-SF_stringent/ -p profiles_TFF-SF_stringent/ -o macsyfinder_T2SS-Tad-T4P-T4bP-MSH-ComM --db-type ordered_replicon --sequence-db sequence.fasta T2SS Tad T4P ComM +macsyfinder -w 4 -d DEF_TFF-SF_final/ -p profiles_TFF-SF_final/ -o macsyfinder_T2SS-Tad-T4P-T4bP-MSH-ComM --db-type ordered_replicon --sequence-db sequence.fasta T2SS Tad T4P T4bP MSH ComM ``` For Archaeal-T4P ``` -macsyfinder -w 4 -d DEF_TFF-SF_stringent/ -p profiles_TFF-SF_stringent/ -o macsyfinder_Archaeal-T4P --db-type ordered_replicon --sequence-db sequence.fasta Archaeal-T4P +macsyfinder -w 4 -d DEF_TFF-SF_final/ -p profiles_TFF-SF_final/ -o macsyfinder_Archaeal-T4P --db-type ordered_replicon --sequence-db sequence.fasta Archaeal-T4P ``` -- GitLab