How to generate simulated RNA-seq data
Hi!
My professor has asked me to generate simulated RNA-seq data. Preferably a dataset that contains expressed transposable elements (TEs). I am new to bioinformatics but have strong programming skills. I know that I should do it using Polyester, but it doesn't have strong documentation. Also, I couldn't find any tutorials online. Is there any tutorial that teaches generating simulated RNA-seq data step by step?
Thank you for your attention.
• 861 views
•
link
updated
by
GenoMax
•
written
by
arash.mehrabi.zkz •
•
written
by
arash.mehrabi.zkz •
1 answer
There are multiple read simulators available:
What Ngs Read Simulators Are Available For Paired-End Data?
NGS reads simulation
I suggest you look at ART and perhaps randomreads.sh from BBMap.
Log in to answer this question.
More posts like this
-
RSEM vs. SQUIRE for Transposable Element Accommodation
written by Etornam09 •
-
Transcription Factor Binding sites intersecting Transposable Elements
written by M.Adiba •
-
Does anyone have experience using findtail?
written by pubsurfted •
-
How to study transposable elements expression relationship with its closest gene?
written by fernandogs97 •
-
Checking for gene expression in transcriptome - 1 sample RNASeq
written by Susan •
-
miRNA-mRNA correlation data analysis
written by rezaeir75 •
-
Salmon / IGV
written by pablo
-
What's the criteria to simulate RNA-seq read counts table
written by statfa
-
Looking for changes in expression of transposable elements in human cells
written by james.lloyd
-
IGV for RNA-SEQ
written by indranipoddar •
