Hi,
I have several .fastq files from Nanopore sequencing technology. I have already done trimming and filtering. I was also able to do clustering using isONclust. Nevertheless, I have the following concern. How do I generate a single "otu table" with the clustering files' outputs separated by samples? In short, I run the following commands, but I do not know how to merge everything into one file.
sONclust --fastq sample1_filter.fastq --ont --medaka --outfolder sample1_clust/
isONclust --fastq sample2_filter.fastq --ont --medaka --outfolder sample2_clust/
isONclust --fastq sample3_filter.fastq --ont --medaka --outfolder sample3_clust/
Dear Luigimaria Borruso ,
isONclust is a tool for clustering either PacBio Iso-Seq reads, or Oxford Nanopore reads into clusters, where each cluster represents all reads that came from a gene. Output is a tsv file with each read assigned to a cluster-ID. Detailed information is available in paper.
https://github.com/ksahlin/isONclust
Regards,
Shafagat
Thanks a lot for your answer. I already went through the paper and tutorial, but unfortunately, I did not find the information i need.
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