RNA editing softwares

[nagendra]

Hi ,

I am a newbie to this field , I am currently trying to work on finding rna editing sites , are there any well known softwares and papers which deal with this issue?

I currently know of rddChecker and expedit , but are there any other softwares apart from these , also if possible can someone point me out to some good links to tutorials on rna editing so that I ca understand the subject matter better

[cascoamarillo]

Hi,
There are plenty of papers dealing with RNA editing at the PubMed. For example:

http://www.ncbi.nlm.nih.gov/pubmed/22955975

http://www.ncbi.nlm.nih.gov/pubmed/22524474

They deploy interesting analysis pipelines.
Expedit can be useful if you work with human genomes. I haven't test rddChecker. Other options: VarScan and Samtools-bcftools. They have a slightly different variant calling approach.

[nagendra]

Thank you for the reply . I am looking into it . Also do the software's listed consider both mis-aligment and multiple alignment issue's.?