Hi all,
I am working with 1KGenomes data abd I have conducted all the analysis on my files of interest.
What I am really after is to annotate my data, I have been using annovar, which works great, however i have come accross an issue.
First I used dbSNP 129 and hg18 for annotating, this time most variants were not annotated. I was then advised to use buildver 37 and hg19 and i used dbSNP 132. This time around most variants where annotated, but my variant was interest was not. Thinking it may not be annotated i looked at the filtered file and even the genomic coordinates for that variant did not appear in that.
Can someone clearly explain with assembly versions, dbSNP builds etc.
Happy Holidays to all !
Ashwin
I am working with 1KGenomes data abd I have conducted all the analysis on my files of interest.
What I am really after is to annotate my data, I have been using annovar, which works great, however i have come accross an issue.
First I used dbSNP 129 and hg18 for annotating, this time most variants were not annotated. I was then advised to use buildver 37 and hg19 and i used dbSNP 132. This time around most variants where annotated, but my variant was interest was not. Thinking it may not be annotated i looked at the filtered file and even the genomic coordinates for that variant did not appear in that.
Can someone clearly explain with assembly versions, dbSNP builds etc.
Happy Holidays to all !
Ashwin
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