Hello Folks
We have run 24 influenza virus samples on our MiSeq and obtained 48 FASTQ files (R1 + R2 for each). We also got 24 Contig files.
We didn't run any standard for them during analysis.
Now how we can proceed with the analysis. Which software we should use? Should we combine R1 and R2 first. Or we can align R1 R2 to reference from the beginning. I do not have any background of bioinformatics. A detailed reply for a beginner will be appreciated.
We have run 24 influenza virus samples on our MiSeq and obtained 48 FASTQ files (R1 + R2 for each). We also got 24 Contig files.
We didn't run any standard for them during analysis.
Now how we can proceed with the analysis. Which software we should use? Should we combine R1 and R2 first. Or we can align R1 R2 to reference from the beginning. I do not have any background of bioinformatics. A detailed reply for a beginner will be appreciated.
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