A method of preparing an implantable biological device having a first tissue part and a second tissue part includes exposing the first tissue part to a first preparation method and preventing exposure of the second biological tissue part to the first preparation method. Preventing exposure of the second biological tissue part to the first preparation method may be achieved using an embedding technique, a coating technique, a covering technique, or physical isolation. The method may further include exposing the second tissue part to a second preparation method and preventing exposure of the first biological tissue part to the second preparation method. An apparatus for preparing an implantable biologic device includes an enclosure having first and second chambers separated by a partition member wherein a substantial portion of the first tissue part is within the first chamber and a substantial portion of the second tissue part is within the second chamber.