Question: Convert NCBI SRA data to gene expression data
0
gravatar for Dylan Wang
7 months ago by
Dylan Wang40
Harbin
Dylan Wang40 wrote:

I have downloaded some SRA data from NCBI(GEO)? I converted SRA data into fastq format. I want to know how to convert fastq format to Gene Expression Matrix using STAR, RSEM?

rna-seq alignment ncbi genome • 305 views
ADD COMMENTlink written 7 months ago by Dylan Wang40
1
gravatar for genomax
7 months ago by
genomax69k
United States
genomax69k wrote:

Mapping of reads with STAR : https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4631051/ (consult STAR manual for latest changes).
RNAseq expression analysis using DESeq2: https://www.bioconductor.org/packages/devel/workflows/vignettes/rnaseqGene/inst/doc/rnaseqGene.html
RSEM Tutorial: https://github.com/bli25broad/RSEM_tutorial

ADD COMMENTlink modified 7 months ago • written 7 months ago by genomax69k
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