Kaviar (~Known VARiants) is a simple tool for answering a specific question:
What variants have been reported for a range of genomic locations?
1. Specify the coordinate system
Human reference version (freeze) is
hg19 (GRCh37)
hg38 (GRCh38)
Input coordinates are
zero-based
one-based
Output coordinates are
zero-based
one-based
same as input
2. Specify your queries
Enter genomic positions or ranges, or dbSNP rsids
You can use a variety of
supported formats
.
Chromosome:
(e.g. "chr1", "chrX", "17")
Coordinate(s):
(e.g. "714019-714033", "77119, 555911,714019")
Alternatively, list coordinates (e.g. paste here from Excel a list of chromosome : position coordinates and/or rsids like rs10136372):
...or upload a text file with the coordinates:
3. Specify filters
MAF
(table/text/JSON output only)
: Min
Max
Variant type(s):
All
SNVs only
Indels and subsitutions only
Platform specificity
(table/text/JSON output only)
:
-
Seen only/mostly on CGI platform
Seen only/mostly on Illumina platform
(platform specific = total observations > 100 with > 95% observed on same technology platform)
4. Specify the output format
Preferred output format:
table (easier on human eyes)
text (easier to parse by scripts)
JSON (JavaScript Object Notation)
VCF (Variant Call Format)
4.