The biodiesel is the methyl (or ethyl or propyl) ester? If so, try partitioning it between hexane and water. The methanol and glycerol will be in the aqueous layer and the biodiesel should partition into the hexanes.
The volume of hexane required depends on the volume of material. But the esters are quite soluble in hexane. A rotary evaporator removes the hexanes and, with a condenser, it may be reused.
What solvent did you run your reaction in? I thought you just had a mixture of your biodiesel, methanol, and glycerol. Perhaps you should tell us more so we can better help.
If the catalyst is a solid, remove the solution and extract as above. If the catalyst is suspended in a solution, we need to know what that solution is.
Methanol itself isn't soluble in hexanes, nor is glycerol.
Indeed, I used the GC-MS for analysis the FAME , can you inform me how can I get the simple procedure for that because a lot of people used the different method and i can't found the good one and simple one using GC-MS, please?