Near-optimal RNA-Seq quantification

A single-cell RNAseq pipeline for 10X genomics data

A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing

A guide to using a Seurat object in conjunction with RNA Velocity

kallisto | bustools workflow for pre-processing single-cell RNA-seq data

A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.

A nextflow implementation of Kallisto & Sleuth RNA-Seq Tools

RNA-seq analyses.

Running state-of-the-art RNA-seq abundance quantification software "kallisto" on UPMEM DPU system

Automated and friendly RNA-seq analysis (deprecated)

Experiment illustrating how Nextflow can make biological pipelines reproducible

Estimate fastq-formatted read abundace in RNA-Seq analysis with Kallisto

Iso-seq and Kallisto integration

Transform, query, and merge tabular files with the expressionable command-line tool. This tool is used primarily for gene-expression data.

RNAseq pipeline examples

Evaluating HISAT2, Salmon and Kallisto alignment using Checkpoint Blockade treated CT26 Experimental Data

Identification of viral RNA in single-cell RNA sequencing data

Transform, query, and merge tabular files with the expressionable Python module. This tool is used primarily for gene-expression data.

kallisto task for RNA-seq workflow

docker file for genomic tools