I am unsure if I am missing something relatively obvious here, so I hope you can help, because I am not sure where I am going wrong. I will soon be receiving data from several sources, but I thought that I would try to produce a build using samples from GISAID. I am trying to make something for just Sweden (for which GISAID has around 7000 samples).
I have thus taken all of the data directly from GISAID (the files named FASTA and metadata in their downloads section) and set that as the data in a build. I have modified build.yaml (from the example tutorial) to show a country level build in accordance to the tutorial.I have also modified the config file accordingly (so everything ‘points’ to where it should). I am hoping to get something like neherlab have for Sweden (in the local build shown for it where there is data shown in each region). I haven’t changed anything else from the tutorial files really.
Unfortunately, all of the data for Sweden is filtered out (along with most other samples!) and I am not really sure why.
Any advice that you could give me would be very much appreciated.