Tag Archives: kallisto

Arkas – Rapid reproducible RNA-Seq analysis

rna-seq

The recently introduced Kallisto pseudoaligner has radically simplified the quantification of transcripts in RNA-sequencing experiments.  Researchers from the Keck School of Medicine of USC offer cloud-scale RNAseq pipelines Arkas-Quantification, which deploys Kallisto for parallel cloud computations, and Arkas-Analysis, which annotates ...

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Benchmarking of RNA-Seq analysis workflows

rna-seq

RNA-sequencing has become the gold standard for whole-transcriptome gene expression quantification. Multiple algorithms have been developed to derive gene counts from sequencing reads. While a number of benchmarking studies have been conducted, the question remains how individual methods perform at ...

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IIHG Intro to Kallisto for RNA-Seq

rna-seq

A brief introduction to the theory and method underlying kallisto for transcript quantification of RNA-Seq data. This screencast is from our IIHG MiniCourse training series on bioinformatic methods for U Iowa researchers. Find IIHG on the web at: http://www.medicine.uiowa.edu/humangenetics/

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IIHG Intro to Sleuth for RNA-Seq

rna-seq

A brief introduction to the Sleuth R Shiny app for doing exploratory data analysis of your RNA-Seq data. This tutorial assumes that the data have been already quantified with kallisto and processed into a sleuth object with the sleuth r ...

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