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xinehc / args_oap

ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Database
MIT License
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FASTQ reads headers #21

Open Biofarmer opened 1 year ago

Biofarmer commented 1 year ago

Hi, I am using the version 3.2.2 of args-oap on paired-end shotgun sequencing files. As mentioned "If you use paired-end files, please make sure the forward/reverse reads end with _1 and _2 or _R1 and _R2", it only refers to the file names, not the fastq reads header, right? If my understanding is right, may I ask whether there is any requirement for the read header in forward and reverse files? For example, the forward and reverse files have the same or different header, like @SRR000001 in both files, or @SRR000001.1 in forward file and @SRR000001.2 in reverse file or @SRR000001/1 in forward file and @SRR000001/2 in reverse file, will the same results come from these cases differing in header format? Thanks Wang

xinehc commented 1 year ago

Hi,

it only refers to the file names, not the fastq reads header, right?

yes

may I ask whether there is any requirement for the read header in forward and reverse files?

there are no special requirements for the fasta header.

HTH Xi

Biofarmer commented 1 year ago

Hi Xi, thank you very much for your reply. Does "HTH" just mean for "hope this helps"?