A single-cell RNAseq pipeline for 10X genomics data
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Updated
Oct 4, 2024 - Nextflow
A single-cell RNAseq pipeline for 10X genomics data
A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
Identification of viral RNA in single-cell RNA sequencing data
RNA-seq analyses.
A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing
Library & executable for converting Themisto pseudoalignments to kallisto pseudoalignments.
Assembly of RNA transcriptome, differential expression analysis, identification of lncRNA candidates based on genomic context and protein coding potential.
Running state-of-the-art RNA-seq abundance quantification software "kallisto" on UPMEM DPU system
GenePattern Notebook running Kallisto
Automated and friendly RNA-seq analysis (migrated to Parse Server)
A script to analyze with DESeq2 data from Kallisto. You maybe are interested only in DESeq2 part and its analisis and representation :)
Differential gene expression analysis of Nannochloropsis oceanica growth with or without beneficial/harmful bacteria.
kallisto | bustools workflow for pre-processing single-cell RNA-seq data
Bulk RNA-seq analytical pipeline, including using Snakemake to run main steps such as Kallisto read mapping, QC, Principal Component Analysis (PCA), and other downstream analysis.
A guide to using a Seurat object in conjunction with RNA Velocity
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