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bio-metagenomics-abundance

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Species abundance estimation using Bracken with Kraken2 output. Redistributes reads from higher taxonomic levels to species for more accurate estimates. Use when accurate species-level abundances are needed from Kraken2 classification output.

When to use

• Species abundance estimation
• Redistribute reads from higher taxonomic levels
• Accurate species-level abundances
• Bracken database building
• Filter low-abundance taxa
• Combine multiple samples
• Create abundance matrix
• Convert to relative abundance

When not to use

• Kraken2 classification
• MetaPhlAn profiling
• Metagenome visualization

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