need to write documentation

CreRecombinase · May 24, 2017 · 8696d3d · 8696d3d
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Showing 14 changed files with 154 additions and 347 deletions.
diff --git a/.travis.yml b/.travis.yml
@@ -0,0 +1,6 @@
+language: r
+cache: packages
+notifications:
+  email:
+    false
+warnings_are_errors: false
diff --git a/Bayes_EM_GWAS.R b/Bayes_EM_GWAS.R
diff --git a/Compare_FGEM.R b/Compare_FGEM.R
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,13 +1,15 @@
 Package: FGEM
 Type: Package
-Title: What the Package Does (Title Case)
+Title: R package for Functional Genomics using Expectation Maximization (FGEM)
 Version: 0.1.0
-Author: Who wrote it
-Maintainer: Who to complain to <[email protected]>
-Description: More about what it does (maybe more than one line)
-License: What license is it under?
+Author: Nicholas Knoblauch
+Maintainer: Nicholas Knoblauch <[email protected]>
+Description: Given a list of gene-level bayes factors and a series of annotations about those genes, 
+FGEM simultaneously calculates a posterior probability of genes being causal, and estimates the effect size
+of the annotations.
+License: GPL (>= 2)
 LazyData: TRUE
 Imports:
-    Rcpp (>= 0.12.5),RcppArmadillo,dplyr,tidyr,SQUAREM
+    Rcpp (>= 0.12.5),RcppArmadillo,dplyr,tidyr,SQUAREM,magrittr
 LinkingTo:
     Rcpp,RcppArmadillo
diff --git a/FGEM.Rproj b/FGEM.Rproj
@@ -0,0 +1,17 @@
+Version: 1.0
+
+RestoreWorkspace: Default
+SaveWorkspace: Default
+AlwaysSaveHistory: Default
+
+EnableCodeIndexing: Yes
+UseSpacesForTab: Yes
+NumSpacesForTab: 2
+Encoding: UTF-8
+
+RnwWeave: Sweave
+LaTeX: pdfLaTeX
+
+BuildType: Package
+PackageUseDevtools: Yes
+PackageInstallArgs: --no-multiarch --with-keep.source
diff --git a/GenConstraintMat.R b/GenConstraintMat.R
diff --git a/Generate_GOmat.R b/Generate_GOmat.R
diff --git a/NAMESPACE b/NAMESPACE
@@ -1,3 +1,4 @@
 exportPattern("^[[:alpha:]]+")
 importFrom(Rcpp, evalCpp)
+importFrom(magrittr,"%>%")
 useDynLib(FGEM)