Kraken is a taxonomic sequence classifier that assigns taxonomic labels to short DNA reads. It does this by examining the k -mers within a read and querying a database with those k -mers.
This database contains a mapping of every k -mer in Kraken 's genomic library to the lowest cheap ancestor LCA in a taxonomic tree of all genomes that contain that k -mer. The set of LCA taxa that correspond to the k -mers in a read are next analyzed to create a unmarried taxonomic label for the read; this label can be any of the nodes in the taxonomic tree.
Kraken is designed to be rapid, sensitive, and highly precise.
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- TO FILTER ALIGNMENTS BASED ON ALIGNMENT LENGTH, ACCURACY, HIT POLICY AND ETC. TO...
- OTHER GENOMES IN A FASTA/MULTI-FASTA FILE CAN ALSO BE ADDED: . FASTQ INPUT: INPUT...
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Did he/does he fancy me or just playing around?To run Gubbins with default settings: gottesbibel.info [FASTA alignment]. Input options: -outgroup, -o. The name of a sequence in the alignment on which to root . Input Format. Fasta format. example1 (LSU rRNA), example2 (protein). The type of input sequences (amino acid or nucleotide) is automatically recognized..
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- MAFFT - a multiple sequence alignment program
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