Tutorial: One of the easy way to achieve read count and RPKM file
4
gravatar for maleknias
4 months ago by
maleknias40
maleknias40 wrote:

1- You can go to web: https://jhubiostatistics.shinyapps.io/recount/

2- Type your study ID in search box, like; SRP066834.

3- Based on any biological requirement like gene, exon, junction or phenotype, you can download read count table, RSE (RData file) and link to other information.

4- If you want RPKM of gene, you can get it by "recount" package in R.

R code:

library('recount')
rse <- scale_counts(rse_gene)
RPKM=getRPKM(rse)
write.csv(RPKM, file = RPKM.csv')

//attention: Your study may NOT be available on this site.

rna-seq tutorial • 363 views
ADD COMMENTlink modified 4 months ago by WouterDeCoster24k • written 4 months ago by maleknias40

Thanks for sharing!

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ADD REPLYlink written 4 months ago by WouterDeCoster24k
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