I am new working with sequencing data, my laboratory has an Ion Torrent PGM sequencer. I have read that the sequences are single end reads, is it possible that with this data I can identify SNP if I do not have a reference genome?
To detect SNP you need to have a reference to compare your sample to something ! Are you in a specific organism ?
By the way if you have a whole sequencing organism and multiple samples you can create your own reference and then align and call your variant in your different sample.
By the way are you sure you speak about SNP and not variants ?