Thanks.............!!!!!!!!!! I guess this might help
I will try both GATK and samtools.
Here a found a list to analyse seq data..........
I thought this might help as well.....!!!!!!!!!!!
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I've run both GATK and samtools mpileup on RNA-Seq data, and I got better results with samtools. GATK is more geared towards genome SNPs, and I'm sure by playing around with the settings I could get better results with variant calling for RNA reads, but I haven't tried that yet.Leave a comment:
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Tools or ways to find out variants in RNA seq data ?????
I know that we can find out variants in DNA seq data using different tools(GATK, Samtools..........) but I wonder if there are any tools to find out variants in RNA seq data.
I understand the concept of RNA editing and also the ongoing debate behind it.
Please can anyone help me with how to go with this approach further ?
Also, please suggest me tools to find out variants in RNA seq data
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Non-coding RNAs (ncRNAs) do not code for proteins but play important roles in numerous cellular processes including gene silencing, developmental pathways, and more. There are numerous types including microRNA (miRNA), long ncRNA (lncRNA), circular RNA (circRNA), and more. In this article, we discuss innovative ncRNA research and explore recent technological advancements that improve the study of ncRNAs.
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