An embodiment of the invention relates to an engine system, and a method in an engine system comprising an internal combustion engine having at least one cylinder (2) at which a piston (3), at least one inlet valve (5), at least one exhaust valve (7), and fuel injection means (11), for injection of fuel directly into the cylinder (2), are provided. The method comprises performing the following steps in at least one of the at least one cylinder: controlling (204) at least one of the at least one intake valve (5) so as to introduce air into the cylinder (2), performing (203, 206) at least one main combustion fuel injection (P21, P22) for a main combustion with air introduced into the cylinder (2), controlling (201), during an exhaust stroke and an intake stroke, the intake and exhaust valves (5, 7) so as to form a negative valve overlap (NVO) to capture main combustion residues, and performing (202) at least one pilot fuel injection (P1) during the negative valve overlap. The amount of fuel in the at least one pilot fuel injection (P1) is at least partly dependent on said introduction of air and at least one of the at least one main combustion fuel injection (P21, P22).