Single-cell RNA-seq : for what questions ? and what are the classical pipelines ?
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9.1 years ago
schmilblik ▴ 20

Hello stars!

I'm trying to find out a little bit about single cell RNA-seq and I want to know in which context (the major problems that this technique can answer) and what are the pipelines used in general when we have both classical RNA-seq AND single-cell RNA-seq data?

Thanks in advance

RNA-Seq • 3.4k views
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9.1 years ago
vivekbhr ▴ 700

Hi

This recent review might be useful to you..

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9.1 years ago
Shicheng Guo ★ 9.6k
  • STAR: ultrafast universal RNA-seq aligner
  • TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
  • Cufflinks: Transcriptome assembly and differential expression analysis for RNA-Seq.
  • Trinity: a novel method for the efficient and robust de novo reconstruction of transcriptomes from RNA-Seq data
  • SpliceMap: SpliceMap is a de novo splice junction discovery tool
  • Degust: User friendly RNA-seq differential expression analysis with Degust
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