Question: Convert NCBI SRA data to gene expression data
0
gravatar for Dylan
9 weeks ago by
Dylan30
Dylan30 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 • 151 views
ADD COMMENTlink written 9 weeks ago by Dylan30
1
gravatar for genomax
9 weeks ago by
genomax62k
United States
genomax62k 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 9 weeks ago • written 9 weeks ago by genomax62k
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