Having done these as part of my job theb I would say they are much easier to do by removing the sash but that depends on how good access is to the sash. Normally you can pivot the sash , either using screw the flat head screw by the pivot slot , or push the button it, on either side and then lift the sash up and out. Seeing as your glass is near enough 1mtr x 1mtr the sash may be awkward for one person to lift out . The reason its easier with the sash out is, reaching all the screws, and them undoing isn't always simple leaning out on to the roof, sometimes the old screws snap, sometimes they don't want to budge, and the sash being out on the floor makes it a lot easier to deal with. Having said that it is possible to do it on situ.
A big thing to note though is velux , originally, didn't supply rooflights with safety glass in them, so be careful removing the glass, especially in the sash is still in situ and consider the effects of gravity ( i know , quite obvious but youd be surprised how many people dont lol )....I'm hoping the place you purchased the new unit from supplied it with toughened glass, as to me , and a lot of other people in the industry, having non safety glass above your head is a huge risk...