Thank you for all the advices guys. Currently I use following set up steps
1. Image capture through Nebulosity with QHY8
2. Calibrate (dark, bias, flat) in nebulosity
3. Debayer in in nebulosity
4. Stack all captured frames in one file
5. Post processing done on Photoshop CS2
After reading all the advice I think i will modify step 4 so that i stack them in groups of same exposure length. Need to read more on layer and masking for photoshop