Question: Polyester RNA-seq simulation
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gravatar for k.kathirvel93
2.3 years ago by
k.kathirvel93260
India
k.kathirvel93260 wrote:

Hi EveryOne,

I am trying Polyester tool to simulate RNA-seq reads. i got a R code, but that will produce reads from chr22, but i want to generate reads from all chromosomes. I am very new to R. Can i get code or suggestions. Thanks in advance.

sequencing rna-seq next-gen • 702 views
ADD COMMENTlink modified 2.3 years ago by genomax91k • written 2.3 years ago by k.kathirvel93260

Without actual code you are using it is difficult for people to see what is going on. Please edit the original post and add your code/output samples.

ADD REPLYlink modified 2.3 years ago • written 2.3 years ago by genomax91k

Here is the github manual which i have used. Thank you

ADD REPLYlink modified 2.3 years ago • written 2.3 years ago by k.kathirvel93260
0
gravatar for genomax
2.3 years ago by
genomax91k
United States
genomax91k wrote:

The manual is only using sequence for chr22 as an example.

fasta_file = system.file('extdata', 'chr22.fa', package='polyester')

You will need to replace chr22.fa with a genome.fa, if you need the full genome.

ADD COMMENTlink written 2.3 years ago by genomax91k
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