I have several maize GBS raw data (less than 10) from the same family. I wish to merge these individual sequence into one ., meanwhile fix and patch the mistakes of SNPs.
sample 1: NNNNN TTCGG TNNGC sample 2: NNNNN TTCCC TNNGC sample 3: NNANN NTCGG TNNGC
merge and fix to: NNNNN TTCGG TCCGC
Once the SNP shows up in 2 samples then considered as a real SNP otherwise no change.
I'm new in GBS and SNP analysis. Can someone help me with this? Thank you!
PS: I've already separate each sample sequence into individual fasta file and barcode is removed.I know statistically using such a small population to do this is meaningless, let's just say this is a test. :)