Excel sheet method by filter screening is although can be used one after other but any software which can help in single step....

http://www.bioinformatics.nl/tools/haplosnper/manuals/HaploSNPer_manual.html

BEAGLE - http://faculty.washington.edu/browning/beagle/beagle.html

MACH - http://www.sph.umich.edu/csg/abecasis/MACH/

or.. if you have few SNPs (or Samples) you could try also fastPHASE (http://depts.washington.edu/fphase/Old/).

If you have pedigree or family structure there are a few quick-and-dirty ones, that do not loose too much in terms of accuracy.

Actually, you can use the web tools sheSis and haploview4.2 separately. LD analysis works well with Haploview 4.2 as well. But the SheSis tool (http://analysis.bio-x.cn) is what I've found to be the best for just haplotype analysis. There, you may use a tool in the simplest way possible, and there you will also find a promt helping corner. It's the simplest route, to put it simply. Many thanks.

Currently, SheSis tool (http://analysis.bio-x.cn) is not working properly. If you try to do more than 2 SNPs you can't analyze them.

I used Shesis tool for haplotype. It works properly.