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6.9 years ago
khulan1017
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0
Hello, I got the Fungal NGS data from pacbio, but I stuck with how to analyze my fungal seq-data? For bacterial data, I used Geneious 16srRNA DB but they don't have a fungal database yet. I have no idea how to analyze whole sequence data, it's very big data I can't blast every single contigs.
What exactly do you have? reads or contigs? What are you looking for? Bacterial contamination or Fungal genomic assembly? What do you have sequenced? Genomic DNA?
Hello, yes I have a reads and sequenced genomic DNA from soil and plant root, I'm looking for what kind of bacterial and fungal community in soil and root. I need to know a percentage of bacterial and fungal ratio and whole community identification.
You can run Standalone BLAST against Silva DB to see what kind of bacterial and fungal community in your samples. To find percentage of bacterial and fungal ratio and whole community identification you can use QIIME pipeline