In his order, the Judge said the petitioner's claim for admission to the course cannot be denied on the ground that she has not obtained the minimum 50 per cent marks.
"This minimum marks holds good only for males and females," the judge noted, and pointed out that the prospectus was silent about transgenders.
"Therefore, leniency should be shown to the transgender person," the judge said.
Authorities were guilty of not implementing The Supreme Court and High Court orders to provide reservation for them, the court said.
The petitioner should be admitted in the course within a week, failing which the authorities shall appear before it on December 11, the court directed the secretary, Directorate of Indian Medicine and Homeopathy.
Referring to the plight of transgenders, the judge said they faced harassment, sexual violence and were denied basic civil rights.
"Therefore, helping hands should be extended by all, especially by the government," the judge said.
He said such rights have been denied to them till date, violating the fundamental rights guaranteed under the Constitution.
The judge also directed the state to issue guidelines on the "determination of the community" and "reservation in employment" for transgenders.
He directed that procedures to be followed by state agencies in selecting the third gender candidates for appointment in its services be streamlined.
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