Jawaharlal Nehru University vice-chancellor M Jagadesh Kumar alleged on Monday that the varsity students forcibly entered his house and confined his wife inside for several hours.
Police, however, said there was a call for a march by some students, but security personnel stopped them when they tried to gain entry.
"This evening few hundred students forcibly broke into my JNU residence and confined my wife inside home for several hours while I was away in a meeting. Is it the way to protest? Terrorosing (sic) a lonely lady at home?" Kumar asked on Twitter.
However, Kumar said on Tuesday that he had "forgiven" them and would not file a complaint with the police.
"While last night's violent behaviour by students in front my JNU residence is condemnable, neither me nor my wife will file a police complaint against the students. We have forgiven them. Wish them the best and hope they will reform and not repeat such acts in future," Kumar said.
The Jawaharlal Nehru University Students' Union has denied Kumar's allegation.
"The JNUSU categorically rejects the falsehood being spread by the VC, Mamidala Jagadesh Kumar. The JNUSU (on Monday) after waiting (at the VC's residence) returned to the protest venue where an indefinite hunger strike is taking place," it said.
A student from a Left outfit rejected the allegation and said a group of students had gone to meet the vice-chancellor, but they were allegedly manhandled by the security personnel.
WATCH: JNU VC says students forcibly entered his home
Seven students have been on a hunger strike since last week in protest against the online system of entrance exam that will be implemented from this academic session.
According to sources, students from Left outfits went to the vice-chancellor's residence to demand an audience with him since he had not been meeting them. When they went to meet him last week, he offered them sweets rather than addressing their concern.
On Monday evening, the students allegedly barged inside Kumar's residence while he was away and surrounded his wife. Police were called in and the wives of other university professors rescued her, a professor said. Kumar's wife was rushed to a hospital as she was in a state of trauma.
"We had gone to his residence to meet the V-C. We were manhandled by security personnel and many students have sustained injuries, including JNUSU president N Sai Balaji," a student said.
The police said the situation was under control. The university professors were patrolling the campus to ensure that no untoward incident happened.