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Old 05-17-2013, 03:28 AM   #1
nagendra
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Default RNA editing softwares

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
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Old 05-17-2013, 08:40 AM   #2
cascoamarillo
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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.
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Old 05-18-2013, 01:43 AM   #3
nagendra
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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.?
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