The purpose of this study was to assess the ability of the newly developed FreeSurfer (FS) PET processing pipeline to reproduce the results reported by Mc Mahon et al. 2014. Mc Mahon et al. 2014 investigated differences of the serotonin transporter (SERT) between summer and winter scans in patients suffering from Seasonal Affective Disorder (SAD) versus healthy controls, and for various genotypes. Seventeen SAD patients (8 men, 9 women; age, 27 ± 9 y) and 23 healthy controls (10 men, 13 women; age, 25 ± 7 y) underwent [ 11 C]-DASB PET imaging two consecutive times in a randomized sequence (winter or summer), defined by a 12 week interval centered around winter or summer solstice. A global volume weighted non-displacable binding potential (BPND) was estimated for all patients with the purpose of evaluating seasonal variation at the group level. We intended to evaluate reproducibility and consistency of the results reported by Mc Mahon et al. 2014 by comparing the corresponding results obtained with the newly developed FS PET pipeline, and with a special focus on current state-of-the-art methods. In general PET analysis using the FreeSurfer PET pipeline was able to reproduce the results estimated by gold standard procedures such as PVElab and SPM8. We were not able to obtain the exact same results as reported by McMahon et al., however this is likely to be caused by initial assumptions of volumes of interest and subsequent processing choices. The reported results seemed to be within an accepted range, indicating that FreeSurfer may be used as feasible tool in the analysis of PET data.