A method for reducing N/2 ghost or Nyquist ghost in magnetic resonance (MR) images is provided The method includes acquiring k-space dataset for an object using an echo planar imaging (EPI) sequence, dividing the k-space dataset into first partial k-space subset data related to positive echoes and second partial k-space subset data related to negative echoes, obtaining third partial k-space subset data that is N/2 or Nyquist ghost-free subset data, respectively registering the first partial k-space subset data and the second partial k-space subset data to a first portion of the third partial k-space subset data corresponding to positive echoes and a second portion of the third partial k-space subset data corresponding to negative echoes, combining the registered first partial k-space subset data and the registered second partial k-space subset data to form full k-space dataset, and reconstructing an image for the object based on the full k-space dataset.