The steps i have done so far
- used guppy to do base calling from fast5 to fastq so what i see is in each barcode file i have 1960 fastq files which i have merged.
- The i did trim the fastq files using NanoFilt
- Now what i saw from various resources is they are going for de-novo assembly using tools like canu followed by minimap.
So is it needed to do de-novo assembly or I can simply use my fastq files which were filtered in tools like kraken for taxonomic classification..
Any help or suggestion would be really appreciated