From f4933c04dc13ffae8557618026a8d2fd1a1c1354 Mon Sep 17 00:00:00 2001
From: Amandine PERRIN <amandine.perrin@pasteur.fr>
Date: Wed, 2 Sep 2020 16:16:11 +0200
Subject: [PATCH] =?UTF-8?q?update=20readme=20with=20panacota=20definition?=
 =?UTF-8?q?=C3=A9=20=C3=A9?=
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

---
 README.md | 14 ++++++++------
 1 file changed, 8 insertions(+), 6 deletions(-)

diff --git a/README.md b/README.md
index 39cd2836..a6104866 100755
--- a/README.md
+++ b/README.md
@@ -11,12 +11,14 @@ This README file provides some essential information to install/use PanACoTA. Bu
 ---
 ---
 
-PanACoTA is a software providing tools for large scale comparative genomics:
-
-- annotation of genomes
-- pan-genome
-- persistent genome
-- phylogenetic tree from persistent genome
+``PanACoTA``  (PANgenome with Annotations, COre identification, Tree and corresponding Alignments) is a software providing tools for large scale bacterial comparative genomics. You can download all refseq genomes for a given species, or use your set of complete and/or draft genomes, to:
+
+- Do a quality control of your strains, to eliminate poor quality genomes, which would not give any information for the comparative study
+- Uniformly annotate all genomes (with functional annotation, or only syntactic annotation, according to your needs)
+- Do a Pan-genome
+- Do a Core or Persistent genome
+- Align all Core/Persistent families
+- Infer a phylogenetic tree from the Core/Persistent families
 
 
 # Installation
-- 
GitLab