From e27b236531cbfd0b77d1f463058ecfa71eba2919 Mon Sep 17 00:00:00 2001
From: Fontrodona Nicolas <nicolas.fontrodona@ens-lyon.fr>
Date: Thu, 29 Oct 2020 16:52:42 +0100
Subject: [PATCH] src/find_interaction_cluster/__main__.py: add a region
parameter
---
src/find_interaction_cluster/__main__.py | 9 ++++++---
1 file changed, 6 insertions(+), 3 deletions(-)
diff --git a/src/find_interaction_cluster/__main__.py b/src/find_interaction_cluster/__main__.py
index 71a3bcc3..78d1afaf 100644
--- a/src/find_interaction_cluster/__main__.py
+++ b/src/find_interaction_cluster/__main__.py
@@ -23,7 +23,7 @@ def launcher(weight: List[int] = (1),
global_weight: List[int] = (0),
same_gene: bool = True,
ps: int = ConfigGraph.cpu,
- html_fig: bool = False, feature: str = 'exon',
+ html_fig: bool = False, feature: str = 'exon', region: str = '',
logging_level: str = "DISABLE"):
"""
Script used to find communities inside exon co-localized within a project
@@ -38,6 +38,8 @@ def launcher(weight: List[int] = (1),
same gene (True) or not (False) (default True)
:param html_fig: True to display the html figure (default False).
:param feature: The feature we want to analyse (default 'exon')
+ :param region: The region of a gene to analyse (used only if feature \
+ is 'gene') (default '').
:param logging_level: The level of data to display (default 'DISABLE')
"""
logging_def(ConfigGraph.community_folder, __file__, logging_level)
@@ -49,9 +51,10 @@ def launcher(weight: List[int] = (1),
install_hipmcl("INFO")
multiple_community_launcher(1, weight, global_weight, same_gene, html_fig,
feature, logging_level)
- # multiple_stat_launcher(ps, weight, global_weight, same_gene, feature,
- # logging_level)
+ multiple_stat_launcher(ps, weight, global_weight, same_gene, feature,
+ logging_level)
multiple_nt_lmm_launcher(ps, weight, global_weight, same_gene, feature,
+ region,
logging_level)
--
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