How to make phylogenetic using binary data

Question

[Kumar]

I am trying to make phylogenetic tree using binary data. I tried using RaXML, Phylip but not sure if the input format is correct. Please suggest

 phylip gendist M binary.txt
 raxmlHPC ­s alg ­m GTRGAMMA ­q part ­p 12345 ­n TEST

input data:

    C1  C3  C5  D1
 gene1   1  0   1   0
 gene2   0  1   0   1
 gene2   1  0   0   1
 geen3   1  1   0   1