diff README @ 5:8952990fcab9

Update to snpEff version 3.4 and add data managers to download snpEff genome reference databases

--- a/README	Mon Oct 07 10:59:44 2013 -0500
+++ b/README	Wed Nov 27 09:11:32 2013 -0600
@@ -1,4 +1,6 @@
-These are galaxy tools for SnpEff ( http://snpeff.sourceforge.net/ )
+These are galaxy tools for SnpEff a variant annotation and effect prediction tool by Pablo Cingolani. 
+It annotates and predicts the effects of variants on genes (such as amino acid changes).
+( http://snpeff.sourceforge.net/ )
 
 This repository contains a tool_dependencies.xml file that will attempt to automatically install SnpEff and SnpSift.   
 
@@ -15,4 +17,8 @@
   data_manager_snpeff_databases - generates a list of available SnpEff genome databases into the tool-data/snpeff_databases.loc 
   data_manager_snpeff_download - downloads a SnpEff genome database selected from: tool-data/snpeff_databases.loc and adds entries to snpeff_genomedb.loc,snpeff_regulationdb.loc,snpeff_annotations.loc 
 
+SnpEff citation:
+"A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3.", Cingolani P, Platts A, Wang le L, Coon M, Nguyen T, Wang L, Land SJ, Lu X, Ruden DM. Fly (Austin). 2012 Apr-Jun;6(2):80-92. PMID: 22728672 [PubMed - in process]
 
+SnpSift citation:
+"Using Drosophila melanogaster as a model for genotoxic chemical mutational studies with a new program, SnpSift", Cingolani, P., et. al., Frontiers in Genetics, 3, 2012.