<![CDATA[BOL: Kraken: ultrafast metagenomic sequence classification using exact alignments]]> https://bioinformaticsonline.com/bookmarks/view/28119/kraken-ultrafast-metagenomic-sequence-classification-using-exact-alignments? https://bioinformaticsonline.com/bookmarks/view/28119/kraken-ultrafast-metagenomic-sequence-classification-using-exact-alignments Mon, 27 Jun 2016 11:01:44 -0500 https://bioinformaticsonline.com/bookmarks/view/28119/kraken-ultrafast-metagenomic-sequence-classification-using-exact-alignments <![CDATA[Kraken: ultrafast metagenomic sequence classification using exact alignments]]> Kraken is an ultrafast and highly accurate program for assigning taxonomic labels to metagenomic DNA sequences. Previous programs designed for this task have been relatively slow and computationally expensive, forcing researchers to use faster abundance estimation programs, which only classify small subsets of metagenomic data. Using exact alignment of k-mers, Kraken achieves classification accuracy comparable to the fastest BLAST program. In its fastest mode, Kraken classifies 100 base pair reads at a rate of over 4.1 million reads per minute, 909 times faster than Megablast and 11 times faster than the abundance estimation program MetaPhlAn. Kraken is available at http://ccb.jhu.edu/software/kraken/.

Krona

https://sourceforge.net/p/krona/home/krona/

Address of the bookmark: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4053813/

]]> Jit https://bioinformaticsonline.com/bookmarks/view/28119/kraken-ultrafast-metagenomic-sequence-classification-using-exact-alignments#item-annotation-4028 Tue, 08 Mar 2022 00:59:08 -0600 https://bioinformaticsonline.com/bookmarks/view/28119/kraken-ultrafast-metagenomic-sequence-classification-using-exact-alignments#item-annotation-4028 <![CDATA[Comment by Rahul Nayak]]> Useful links

https://genomics.sschmeier.com/ngs-taxonomic-investigation/index.html

]]> Rahul Nayak