A tool to quantify RNA-seq data. The kallisto algorithm uses a pseudo alignment approach to speed up the alignment procedure. The "pseudo alignment" approach can quantify reads without making actual alignments. Kallisto can handle paired-end and single-end reads. It reports transcripts per million mapped reads (TPM).
Transcriptomics; Gene expression; RNA-seq
Bray NL, Pimentel H, Melsted P, Pachter L "Near-optimal probabilistic RNA-seq quantification." Nat Biotechnol. 2016 May;34(5):525-7. https://doi.org/10.1038/nbt.3519
PMID: 27043002
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