version 1.0.3

DESCRIPTION

@@ -1,8 +1,8 @@
 Type: Package
 Title: Learning Causal or Non-Causal Graphical Models Using Information
         Theory
-Version: 1.0.1
-Date: 2017-11-11
+Version: 1.0.3
+Date: 2018-02-2
 Package: miic
 Description: We report an information-theoretic method which learns a large class of causal or non-causal graphical models from purely observational data, while including the effects of unobserved latent variables, commonly found in many datasets. Starting from a complete graph, the method iteratively removes dispensable edges, by uncovering significant information contributions from indirect paths, and assesses edge-specific confidences from randomization of available data. The remaining edges are then oriented based on the signature of causality in observational data. This approach can be applied on a wide range of datasets and provide new biological insights on regulatory networks from single cell expression data, genomic alterations during tumor development and co-evolving residues in protein structures. For more information you can refer to: Verny et al. Plos Comput Biol. (2017) <doi:10.1371/journal.pcbi.1005662>.
 Authors@R: c(person("Nadir", "Sella", role = c("aut","cre"), email = "nadir.sella@curie.fr"),
@@ -17,10 +17,10 @@ Encoding: UTF-8
 LazyData: true
 RoxygenNote: 6.0.1
 LinkingTo: Rcpp
-Packaged: 2017-12-05 13:12:16 UTC; nadir
+Packaged: 2018-02-02 14:16:41 UTC; nadir
 Author: Nadir Sella [aut, cre],
   Louis Verny [aut],
   Severine Affeldt [aut],
   Hervé Isambert [aut]
 Repository: CRAN
-Date/Publication: 2017-12-05 13:26:25 UTC
+Date/Publication: 2018-02-02 14:29:57 UTC

MD5

@@ -1,4 +1,4 @@
-42331e7327bf3b7cc8a3e34339237558 *DESCRIPTION
+166b54785c92f4c2f40212057210d04d *DESCRIPTION
 b50205a65608e6b31f7140a07576af20 *NAMESPACE
 8a83329490f3bc92cbb5a3aa459ab69c *R/data.R
 15d73959b48006dd12eb39f61f0c6c16 *R/evaluate_efn.R
@@ -14,7 +14,7 @@ f6cd4f12a2bed4020d51f6390ee3c7f5 *R/miic.plot.R
 e67bc298c655e8835df7dd757287b284 *R/miic.utils.R
 95897d5733d3844b947af2488d8d2ed4 *R/shared.utils.lib.R
 6e20ed7b7261c755396ccd6a2fb5b13e *R/write.cytoscape.R
-56f5fb69772a96249d878df39f9bd695 *R/write.style.R
+01cda18e51ab9cc9cc8020543a4443d4 *R/write.style.R
 6ad2e090cca5b97d79d5fec0158dd22a *data/cosmicCancer.rda
 c45e16b9419f8c315e51e7a333a47620 *data/cosmicCancer_stateOrder.rda
 49c1015d0983b3acc95d9ed2ef9d56cc *data/datalist
@@ -36,7 +36,7 @@ d0a7e312ede8df92a1240855c6853240 *man/miic.write.style.cytoscape.Rd
 fd6cb900f21d3eade279ebcd8e7dbba8 *src/computeEnsInformation.h
 e274e55bfec8e6738152044be2faa9f1 *src/computeInfo.cpp
 b92099fde178adad20c48b3d1b826928 *src/computeInfo.h
-94ca49ed6a869bef8509a56a32657564 *src/computeInfo_interface.cpp
+84f9804b03eafb859e10339330ce7bc7 *src/computeInfo_interface.cpp
 5cce2bdc080024287e6f2dcadd9f9fdc *src/computeInfo_interface.h
 3ef290b00de4a93037ee99824300ab93 *src/confidenceCut.cpp
 254a0cc0d3a35cfc7d8751ec67021a78 *src/confidenceCut.h

R/write.style.R

@@ -109,8 +109,8 @@ miic.write.style.cytoscape <- function(file)
                   </discreteMapping>
               </visualProperty>
               <visualProperty name=\"EDGE_WIDTH\" default=\"10.0\">
-                  <continuousMapping attributeType=\"float\" attributeName=\"log_confidence\">
-                      <continuousMappingPoint lesserValue=\"4.0\" greaterValue=\"4.0\" equalValue=\"4.0\" attrValue=\"0.0\"/>
+                  <continuousMapping attributeType=\"float\" attributeName=\"weigth\">
+                      <continuousMappingPoint lesserValue=\"2.0\" greaterValue=\"2.0\" equalValue=\"2.0\" attrValue=\"0.0\"/>
                       <continuousMappingPoint lesserValue=\"12.0\" greaterValue=\"12.0\" equalValue=\"12.0\" attrValue=\"20.0\"/>
                   </continuousMapping>
               </visualProperty>

src/computeInfo_interface.cpp

@@ -2,7 +2,7 @@
 
 //#define _MY_DEBUG_ 1
 //#define _MY_DEBUG_NEW 1
-#include <math.h>
+#include <cmath>
 #include <string.h>
 
 #include <stdio.h>