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zhqingit / giremi

GIREMI is a method that can identify RNA editing sites using one RNA-seq data set without requiring genome sequence data.
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Mouse public SNP data #34

Open felipeadgr opened 7 years ago

felipeadgr commented 7 years ago

Hi, I am trying to use GIREMI but I am not sure which public SNPs should be used. (1) Should I use the VCF format? (2) Do I run GIREMI for each chromosome separately?

Best,

Felipe

zhqingit commented 7 years ago

Hi Felipe,

I suggest you run all chromosomes together. The format of the input file that GIREMI requires can be found at https://github.com/zhqingit/giremi. You can use the dbSNP to filter the SNVs.

Please let me know freely if you have any questions.

Best, Qing

2017-06-07 3:42 GMT-07:00 felipeadgr notifications@github.com:

Hi, I am trying to use GIREMI but I am not sure which public SNPs should be used. (1) Should I use the VCF format? (2) Do I run GIREMI for each chromosome separately?

Best,

Felipe

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