Removal of contamints from RNA-seq data

Question

[Liftedkris]

Hi, I have a set of paired end RNAseq reads that are highly contaminated by rRNA, vectors, mtDNA, etc.

Now I need a bioinformatic tool to remove these contaminants from these files.. please could anyone suggest for me a tool to use or how to remove these contaminants from the files?

Thanks

[ATpoint]

Please use the search function, starting with

How to remove contamination from the transcriptome assembly

Filtering of RNA fastq files prior to aligment