diff --git a/packages/istanbul-api/lib/reporter.js b/packages/istanbul-api/lib/reporter.js
index 64709c6f..e4a8ebdc 100644
--- a/packages/istanbul-api/lib/reporter.js
+++ b/packages/istanbul-api/lib/reporter.js
@@ -6,7 +6,8 @@ var path = require('path'),
     configuration = require('./config'),
     inputError = require('./input-error'),
     libReport = require('istanbul-lib-report'),
-    libReports = require('istanbul-reports');
+    libReports = require('istanbul-reports'),
+    minimatch = require('minimatch');
 
 function Reporter(cfg, opts) {
     opts = opts || {};
@@ -81,6 +82,15 @@ Reporter.prototype = {
             watermarks: this.config.reporting.watermarks(),
             sourceFinder: sourceFinder
         });
+
+        var excludes = this.config.instrumentation.excludes() || [];
+
+        coverageMap.filter(function(file) {
+            return !excludes.some(function(exclude) {
+                return minimatch(file, exclude, { dot: true });
+            });
+        });
+
         tree = this.summarizer(coverageMap);
         Object.keys(this.reports).forEach(function(name) {
             var report = that.reports[name];
diff --git a/packages/istanbul-api/package.json b/packages/istanbul-api/package.json
index e443ab13..5378d80a 100644
--- a/packages/istanbul-api/package.json
+++ b/packages/istanbul-api/package.json
@@ -37,6 +37,7 @@
     "istanbul-reports": "^2.0.3",
     "js-yaml": "^3.12.0",
     "make-dir": "^1.3.0",
+    "minimatch": "^3.0.4",
     "once": "^1.4.0"
   },
   "engines": {
diff --git a/packages/istanbul-api/test/reporter.test.js b/packages/istanbul-api/test/reporter.test.js
index e69de29b..6b099419 100644
--- a/packages/istanbul-api/test/reporter.test.js
+++ b/packages/istanbul-api/test/reporter.test.js
@@ -0,0 +1,106 @@
+/* globals context, describe, it */
+
+var assert = require('chai').assert,
+    configuration = require('../lib/config'),
+    coverage = require('istanbul-lib-coverage'),
+    Reporter = require('../lib/reporter');
+
+describe('Reporter', function() {
+    describe('#write', function() {
+        context('config to exclude files is not defined', function() {
+            var config = configuration.loadObject();
+
+            it('does not exclude files from reports', function(done) {
+                var coverageMap = coverage.createCoverageMap({});
+                coverageMap.addFileCoverage(
+                    coverage.createFileCoverage('/a/b/c.js')
+                );
+                coverageMap.addFileCoverage(
+                    coverage.createFileCoverage('/d/e/f.js')
+                );
+                coverageMap.addFileCoverage(
+                    coverage.createFileCoverage('/g/h/i.js')
+                );
+
+                var opts = {
+                    summarizer: function(cm) {
+                        assert.deepEqual(cm.files(), [
+                            '/a/b/c.js',
+                            '/d/e/f.js',
+                            '/g/h/i.js'
+                        ]);
+                        done();
+                    }
+                };
+
+                var reporter = new Reporter(config, opts);
+
+                reporter.write(coverageMap);
+            });
+        });
+
+        context('config to exclude files is defined', function() {
+            var config = configuration.loadObject({
+                instrumentation: {
+                    excludes: ['**/a/**/*.js', '**/h/**/*.js']
+                }
+            });
+
+            context('files to be excluded found', function() {
+                var coverageMap = coverage.createCoverageMap();
+                coverageMap.addFileCoverage(
+                    coverage.createFileCoverage('/a/b/c.js')
+                );
+                coverageMap.addFileCoverage(
+                    coverage.createFileCoverage('/d/e/f.js')
+                );
+                coverageMap.addFileCoverage(
+                    coverage.createFileCoverage('/g/h/i.js')
+                );
+
+                it('excludes files from reports', function(done) {
+                    var opts = {
+                        summarizer: function(cm) {
+                            assert.deepEqual(cm.files(), ['/d/e/f.js']);
+                            done();
+                        }
+                    };
+
+                    var reporter = new Reporter(config, opts);
+
+                    reporter.write(coverageMap);
+                });
+            });
+
+            context('files to be excluded not found', function() {
+                var coverageMap = coverage.createCoverageMap();
+                coverageMap.addFileCoverage(
+                    coverage.createFileCoverage('/x/b/c.js')
+                );
+                coverageMap.addFileCoverage(
+                    coverage.createFileCoverage('/d/e/f.js')
+                );
+                coverageMap.addFileCoverage(
+                    coverage.createFileCoverage('/g/x/i.js')
+                );
+
+                it('does not exclude files from reports', function(done) {
+                    var opts = {
+                        summarizer: function(cm) {
+                            assert.deepEqual(cm.files(), [
+                                '/x/b/c.js',
+                                '/d/e/f.js',
+                                '/g/x/i.js'
+                            ]);
+                            done();
+                        }
+                    };
+
+                    var reporter = new Reporter(config, opts);
+
+                    reporter.write(coverageMap);
+                });
+            });
+        });
+    });
+});