add gencode_genes function

OpenGene · Feb 22, 2016 · f70307b · f70307b
1 parent 863e9ff
commit f70307b
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Showing 2 changed files with 16 additions and 1 deletion.
diff --git a/src/Reference/Gencode/Gencode.jl b/src/Reference/Gencode/Gencode.jl
@@ -4,7 +4,8 @@ export GencodeGene,
     GencodeExon,
     gencode_load,
     gencode_load_file,
-    gencode_locate
+    gencode_locate,
+    gencode_genes
 
 include("config.jl")
 include("index.jl")

diff --git a/src/Reference/Gencode/search.jl b/src/Reference/Gencode/search.jl
@@ -1,3 +1,17 @@
+# get gene details by gene name, return a gene list
+# for most cases, it will return a array with one record
+function gencode_genes(index, genename)
+    genes = []
+    for (chr, genelist) in index
+        for gene in genelist
+            if gene.name == genename
+                push!(genes, gene)
+            end
+        end
+    end
+    return genes
+end
+
 # find which gene and which exon chr::pos locates in 
 function gencode_locate(index, chr, pos)
     if !haskey(index, chr)