In the table below are links to Y-SNP calls for ancient DNA samples from the Zagros Mountains of Iran.
Sample Period Date BC Haplogroup AH2 Early Neolithic 8205–7756 J2b-M12* calls WC1 Early Neolithic 7455–7082 G2b2a-Z8022 calls F38 Early Iron Age 971–832 R1b1a1a2a2a-Y:24376846 calls
Genetiker 
How exactly were you able to determine the Y-DNA haplogroup of AH2 as J2b-M12* when the authors of the study could not determine his Y-DNA haplogroup?
I looked at many more SNPs than they did.
So they did not even really look for many SNPs for AH2’s Y-chromosome?
?
It looks like the .bam files are out now.
http://www.ebi.ac.uk/ena/data/view/PRJEB14180