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•First study of sex determination from foramen magnum using CT scan of Western Indian population.•Five variables (length, breath, areas by two different formulas and index) were calculated.•Highest sexing accuracy was 69.1% for the studied population.

Sex estimation of skeletal remains can lead the forensic anthropologist to the identification of the remains. Skull is one of the most encountered skeletal remains. Different craniofacial parameters have differing capacities to estimate the sex.

The determination of origin of the skeletal remains collected from the crime scene is an important and tough task. Different craniofacial measurements and indices can be useful for this purpose. When the dry skull collection is not available with all the data regarding the identification of skull, different radiographic techniques like cephalography, CT scan etc. can be used to study the morphological and metrical traits of the skull.