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isONclust

Description

isonclust website

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.

Environment Modules

Run module spider isonclust to find out what environment modules are available for this application.

Environment Variables

  • HPC_ISONCLUST_DIR - installation directory
  • HPC_ISONCLUST_BIN - executable directory

Citation

If you publish research that uses isonclust you have to cite it as follows:

Sahlin, K., & Medvedev, P. (2020). De novo clustering of long-read transcriptome data using a greedy, quality-value based algorithm. Journal of Computational Biology, 27(4), 472–484. https://doi.org/10.1089/cmb.2019.0299

Categories

phylogenetics