Hello
Hi my name is Sandra and I'm a postdoc in Portugal. I'm totally ignorant about NGS but I'm currently beginning a project where I'm going to analyse the sequences of several bacterial isolates that where retrieved from a single host over a few years. My objective is to find major and minor alterations that probably occurred as the patient became sicker and the bacteria adapted to the host's deteriorating conditions.
I have many doubts about what kind of tools I should use, and what is actually feasible, so I'll probably ask some really basic questions in the near future. One of the things that seems trickier is that I'm more interested in comparing the isolates with each other than with reference strains that have their genome available. I already have the assemblies and SNP list, but now I have a CLC Genomics license, and I'm trying to find an automated way of converting my SNP list into a format where I can see how the SNPs translate. Anyone know an easy way of doing this?
Cheers
Sandra
I have many doubts about what kind of tools I should use, and what is actually feasible, so I'll probably ask some really basic questions in the near future. One of the things that seems trickier is that I'm more interested in comparing the isolates with each other than with reference strains that have their genome available. I already have the assemblies and SNP list, but now I have a CLC Genomics license, and I'm trying to find an automated way of converting my SNP list into a format where I can see how the SNPs translate. Anyone know an easy way of doing this?
Cheers
Sandra