I'm very new to the world of terminal command and bioinformatics. I currently use ONT for WGS in my lab. I have the FASTQ and FASTA files of my sequence reads that have been basecalled and trimmed with albacore and porechop. y query to the community is:
The file containing the FASTA reads I have used with a reference FASTA file to perform nucmer to generate a delta file that I can input into the web app Assemblytics. However I am now wondering if I need to use assembled files first before using Assemblytics.
I am also using unicycler to align the long reads to generate an assembled file. The output of which is a FASTA file. I want to visualise the assembly in Tablet but the input format has to be SAM or indexed BAM. Can I easily convert the assembled FASTA file to one of these formats? If so how?
I am using macOS