class Person
{
   [Key]
   public int ID { get; set; }
   public string Name { get; set; }
}

class MyDBContentext : DbContext
{
    public MyDBContentext(string connectionString)
           : base(new SQLiteConnection() { ConnectionString = connectionString }, true)
    { }

    protected override void OnModelCreating(DbModelBuilder modelBuilder)
    {
        var sqliteConnectionInitializer = new SqliteCreateDatabaseIfNotExists<MyDBContentext>(modelBuilder);
        System.Data.Entity.Database.SetInitializer(sqliteConnectionInitializer);
    }

    public DbSet<Person> People { get; set; }
}

//main
var conStr = $"Data Source=eftest.sqlite;Version=3;Password=123;";
var ctx = new MyDBContentext(conStr);
ctx.People.Add(new Person() { Name = "foo" });//<--- exception throw here
var res = ctx.SaveChanges();

<system.data>
    <DbProviderFactories>
      <remove invariant="System.Data.SQLite.EF6" />
      <add name="SQLite Data Provider (Entity Framework 6)"
           invariant="System.Data.SQLite.EF6"
           description=".NET Framework Data Provider for SQLite (Entity Framework 6)"
           type="System.Data.SQLite.EF6.SQLiteProviderFactory, System.Data.SQLite.EF6" />
      <remove invariant="System.Data.SQLite" />
      <add name="SQLite Data Provider" invariant="System.Data.SQLite"
            description=".Net Framework Data Provider for SQLite"
            type="System.Data.SQLite.SQLiteFactory, System.Data.SQLite" />
    </DbProviderFactories>
  </system.data>
  <entityFramework>
    <providers>
      <provider invariantName="System.Data.SQLite.EF6"
          type="System.Data.SQLite.EF6.SQLiteProviderServices, System.Data.SQLite.EF6" />
      <provider invariantName="System.Data.SqlClient"
          type="System.Data.Entity.SqlServer.SqlProviderServices, EntityFramework.SqlServer" />
      <provider invariantName="System.Data.SQLite"
          type="System.Data.SQLite.EF6.SQLiteProviderServices, System.Data.SQLite.EF6" />
    </providers>
  </entityFramework>