diff --git a/cmd/protogetter/main.go b/cmd/protogetter/main.go
index e03fdcf..fdc8c14 100644
--- a/cmd/protogetter/main.go
+++ b/cmd/protogetter/main.go
@@ -7,9 +7,5 @@ import (
 )
 
 func main() {
-	cfg := &protogetter.Config{
-		Mode: protogetter.StandaloneMode,
-	}
-
-	singlechecker.Main(protogetter.NewAnalyzer(cfg))
+	singlechecker.Main(protogetter.NewAnalyzer(nil))
 }
diff --git a/go.mod b/go.mod
index a4edd0e..f03c8aa 100644
--- a/go.mod
+++ b/go.mod
@@ -2,7 +2,11 @@ module github.com/ghostiam/protogetter
 
 go 1.19
 
-require golang.org/x/tools v0.12.0
+require (
+	github.com/gobwas/glob v0.2.3
+	github.com/jessevdk/go-flags v1.5.0
+	golang.org/x/tools v0.12.0
+)
 
 require (
 	golang.org/x/mod v0.12.0 // indirect
diff --git a/go.sum b/go.sum
index 14a6610..1a588b6 100644
--- a/go.sum
+++ b/go.sum
@@ -1,6 +1,11 @@
+github.com/gobwas/glob v0.2.3 h1:A4xDbljILXROh+kObIiy5kIaPYD8e96x1tgBhUI5J+Y=
+github.com/gobwas/glob v0.2.3/go.mod h1:d3Ez4x06l9bZtSvzIay5+Yzi0fmZzPgnTbPcKjJAkT8=
+github.com/jessevdk/go-flags v1.5.0 h1:1jKYvbxEjfUl0fmqTCOfonvskHHXMjBySTLW4y9LFvc=
+github.com/jessevdk/go-flags v1.5.0/go.mod h1:Fw0T6WPc1dYxT4mKEZRfG5kJhaTDP9pj1c2EWnYs/m4=
 golang.org/x/mod v0.12.0 h1:rmsUpXtvNzj340zd98LZ4KntptpfRHwpFOHG188oHXc=
 golang.org/x/mod v0.12.0/go.mod h1:iBbtSCu2XBx23ZKBPSOrRkjjQPZFPuis4dIYUhu/chs=
 golang.org/x/sync v0.3.0 h1:ftCYgMx6zT/asHUrPw8BLLscYtGznsLAnjq5RH9P66E=
+golang.org/x/sys v0.0.0-20210320140829-1e4c9ba3b0c4/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
 golang.org/x/sys v0.11.0 h1:eG7RXZHdqOJ1i+0lgLgCpSXAp6M3LYlAo6osgSi0xOM=
 golang.org/x/sys v0.11.0/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg=
 golang.org/x/tools v0.12.0 h1:YW6HUoUmYBpwSgyaGaZq1fHjrBjX1rlpZ54T6mu2kss=
diff --git a/protogetter.go b/protogetter.go
index 3651da6..22e72be 100644
--- a/protogetter.go
+++ b/protogetter.go
@@ -2,13 +2,16 @@ package protogetter
 
 import (
 	"bytes"
+	"flag"
 	"fmt"
 	"go/ast"
 	"go/format"
 	"go/token"
 	"log"
+	"path/filepath"
 	"strings"
 
+	"github.com/gobwas/glob"
 	"golang.org/x/tools/go/analysis"
 	"golang.org/x/tools/go/ast/inspector"
 )
@@ -23,31 +26,73 @@ const (
 const msgFormat = "avoid direct access to proto field %s, use %s instead"
 
 func NewAnalyzer(cfg *Config) *analysis.Analyzer {
+	if cfg == nil {
+		cfg = &Config{}
+	}
+
 	return &analysis.Analyzer{
-		Name: "protogetter",
-		Doc:  "Reports direct reads from proto message fields when getters should be used",
+		Name:  "protogetter",
+		Doc:   "Reports direct reads from proto message fields when getters should be used",
+		Flags: flags(cfg),
 		Run: func(pass *analysis.Pass) (any, error) {
-			Run(pass, cfg)
-			return nil, nil
+			_, err := Run(pass, cfg)
+			return nil, err
 		},
 	}
 }
 
+func flags(opts *Config) flag.FlagSet {
+	fs := flag.NewFlagSet("protogetter", flag.ContinueOnError)
+
+	fs.Func("skip-generated-by", "skip files generated with the given prefixes", func(s string) error {
+		for _, prefix := range strings.Split(s, ",") {
+			opts.SkipGeneratedBy = append(opts.SkipGeneratedBy, prefix)
+		}
+		return nil
+	})
+	fs.Func("skip-files", "skip files with the given glob patterns", func(s string) error {
+		for _, pattern := range strings.Split(s, ",") {
+			opts.SkipFiles = append(opts.SkipFiles, pattern)
+		}
+		return nil
+	})
+
+	return *fs
+}
+
 type Config struct {
-	Mode            Mode
-	SkipGeneratedBy []string
+	Mode            Mode     // Zero value is StandaloneMode.
+	SkipGeneratedBy []string `short:"g" long:"skip-generated-by" description:"Skip files generated with the given prefixes"`
+	SkipFiles       []string `short:"f" long:"skip-files" description:"Skip files with the given glob patterns"`
 }
 
-func Run(pass *analysis.Pass, cfg *Config) []Issue {
-	// Always skip files generated by protoc-gen-go and protoc-gen-grpc-gateway.
-	skipGeneratedBy := []string{"protoc-gen-go", "protoc-gen-grpc-gateway"}
+func Run(pass *analysis.Pass, cfg *Config) ([]Issue, error) {
+	skipGeneratedBy := make([]string, 0, len(cfg.SkipGeneratedBy)+3)
+	// Always skip files generated by protoc-gen-go, protoc-gen-go-grpc and protoc-gen-grpc-gateway.
+	skipGeneratedBy = append(skipGeneratedBy, "protoc-gen-go", "protoc-gen-go-grpc", "protoc-gen-grpc-gateway")
 	for _, s := range cfg.SkipGeneratedBy {
-		if strings.TrimSpace(s) == "" {
+		s = strings.TrimSpace(s)
+		if s == "" {
 			continue
 		}
 		skipGeneratedBy = append(skipGeneratedBy, s)
 	}
 
+	skipFilesGlobPatterns := make([]glob.Glob, 0, len(cfg.SkipFiles))
+	for _, s := range cfg.SkipFiles {
+		s = strings.TrimSpace(s)
+		if s == "" {
+			continue
+		}
+
+		compile, err := glob.Compile(s)
+		if err != nil {
+			return nil, fmt.Errorf("invalid glob pattern: %w", err)
+		}
+
+		skipFilesGlobPatterns = append(skipFilesGlobPatterns, compile)
+	}
+
 	nodeTypes := []ast.Node{
 		(*ast.AssignStmt)(nil),
 		(*ast.CallExpr)(nil),
@@ -56,14 +101,20 @@ func Run(pass *analysis.Pass, cfg *Config) []Issue {
 		(*ast.UnaryExpr)(nil),
 	}
 
-	// Skip protoc-generated files.
+	// Skip filtered files.
 	var files []*ast.File
 	for _, f := range pass.Files {
-		if !skipGeneratedFile(f, skipGeneratedBy) {
-			files = append(files, f)
+		if skipGeneratedFile(f, skipGeneratedBy) {
+			continue
+		}
 
-			// ast.Print(pass.Fset, f)
+		if skipFilesByGlob(pass.Fset.File(f.Pos()).Name(), skipFilesGlobPatterns) {
+			continue
 		}
+
+		files = append(files, f)
+
+		// ast.Print(pass.Fset, f)
 	}
 
 	ins := inspector.New(files)
@@ -85,7 +136,7 @@ func Run(pass *analysis.Pass, cfg *Config) []Issue {
 		}
 	})
 
-	return issues
+	return issues, nil
 }
 
 func analyse(pass *analysis.Pass, filter *PosFilter, n ast.Node) *Report {
@@ -196,6 +247,16 @@ func skipGeneratedFile(f *ast.File, prefixes []string) bool {
 	return false
 }
 
+func skipFilesByGlob(filename string, patterns []glob.Glob) bool {
+	for _, pattern := range patterns {
+		if pattern.Match(filename) || pattern.Match(filepath.Base(filename)) {
+			return true
+		}
+	}
+
+	return false
+}
+
 func formatNode(node ast.Node) string {
 	buf := new(bytes.Buffer)
 	if err := format.Node(buf, token.NewFileSet(), node); err != nil {