diff --git a/src/Support/MutationGenerator.php b/src/Support/MutationGenerator.php
index cebc859..1f241ef 100644
--- a/src/Support/MutationGenerator.php
+++ b/src/Support/MutationGenerator.php
@@ -45,7 +45,8 @@ public function generate(
         }
 
         $mutatorsToIgnoreByLine = [];
-        foreach (explode(PHP_EOL, $contents) as $lineNumber => $line) {
+        $lines = preg_split('/\R/', $contents) ?: [];
+        foreach ($lines as $lineNumber => $line) {
             if (str_contains($line, '@pest-mutate-ignore')) {
                 if (Str::after($line, '@pest-mutate-ignore:') !== $line) {
                     $mutatorsToIgnore = explode(',', Str::after($line, '@pest-mutate-ignore:'));
diff --git a/tests/Unit/MutationGeneratorTest.php b/tests/Unit/MutationGeneratorTest.php
index 79c67ed..84e94b0 100644
--- a/tests/Unit/MutationGeneratorTest.php
+++ b/tests/Unit/MutationGeneratorTest.php
@@ -151,6 +151,16 @@ classesToMutate: $classes,
         ->{0}->mutator->toBe(IfNegated::class);
 });
 
+it('ignores lines with the ignore annotation when file has LF line endings', function (): void {
+    $code = "<?php\n\n\$foo = 1;\n\$bar = 2;\nif (\$a > \$b) { // @pest-mutate-ignore: GreaterOrEqualToGreater\n    \$a = \$b;\n}\n";
+
+    $mutations = ($this->generate)($code, [GreaterOrEqualToGreater::class, IfNegated::class]);
+
+    expect($mutations)
+        ->toHaveCount(1)
+        ->{0}->mutator->toBe(IfNegated::class);
+});
+
 it('ignores lines with the ignore annotation for multiple mutators', function (): void {
     $mutations = ($this->generate)(<<<'PHP'
             <?php