Tag: Cell Ranger alternative
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How to Choose the Best Genome Aligner for a Specific NGS Dataset — A Beginner’s Guide to Read Mapping Tools
From short-read DNA to single-cell and long-read RNA — match your sequencing experiment to the right aligner, and learn exactly how to install and run it Every next-generation sequencing (NGS) analysis begins with the same deceptively simple question: where did each of my millions of short DNA or RNA reads come from in the genome?…
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Recent Posts
- How to Choose the Best Genome Aligner for a Specific NGS Dataset — A Beginner’s Guide to Read Mapping Tools
- How to Set Up a Bulk RNA-seq Pipeline on an HPC Cluster — A Complete Beginner’s Guide to Nextflow and nf-core/rnaseq
- How to Choose Your scRNA-seq QC Tools (Part2-2): SoupX vs DecontX and DoubletFinder vs scDblFinder
- How to Analyze Single-Cell RNA-seq Data — Complete Beginner’s Guide Part 17: Infer Signaling Pathway Activity with decoupleR and PROGENy
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Alternative Splicing Analysis ATAC-seq BAM ChIP-seq chromatin accessibility CNV DESeq2 Differential Expression edgeR FASTQ GATK Mutect2 gene expression heatmap HOMER HPC Isoform limma MACS2 MAF miRNA miRNA-seq MSigDB Normalization peak calling RNA-seq SLURM somatic mutations Transcript VCF whole genome sequencing