I am looking for a tutorial to import data from a number or paired reads fastq files.
I only have a very basic sample metadata reporting the sample id’s and names
I did not yet figured out how and what the manifest should be (dead links in the forum pages)
I do not have the matching barcodes.fastq.gz files and no idea how to get them
provided this dummy example for two samples, could someone please help me create the necessary metadata / manifest to import the reads and start analysis
my sample_metadata.tsv is currently
sample-id
subject
#q2:types
categorical
Exp_A1
normal_rep1
Exp_A9
normal_rep2
my fastq files have already be demultiplexed and are named:
Hi @ splaisan,
Sounds like you have everything you need to get your files imported into Qiime2. Since your files are already demultiplexed you won’t need the barcodes.fastq.gz file. Have you seen the manifest format section of the importing tutorial yet? Also note that your metadata file can double as a manifest file by simply adding the 2 extra columns needed which give the location of your files in your computer. Once you have your manifest file prepared, you can import with something like:
I previously found the following page (Importing paired end demultiplexed MiSeq data) which is an older page explaining how to make a manifest but where links end dead as it was written for an old version of qiime. This is what I named dead link in my post.