The use of digital imagery has increased phenomenally especially in the clinical field. These images are obtained from different modalities such as X-ray and MRI. Digital imaging of the more traditional imagery such as stained tissues has opened up new means of investigation. Hence a need to build a system to analyze the stained tissues and extract the salient information has risen. A Directed FCM Approach for Analysis of Stained Tissues introduces a modified FCM to analyze the tissues. The analysis can be controlled by the user by selecting the number of clusters, size of the clusters and the centers for the clusters. The results of this analysis are reported as the percent of changes in a specific square area.