Home Download Getting started Manual Contact Help Databases
FamLink2 defines genetic markers through two input files, namely .map
and .freq files. Note, all files are tab-separated. The former
essentially describes a genetic map and has the format (header not needed)
[Chromosome] [Marker id] [Genetic position, in cM]
1
rs1234 2.3
Once imported into FamLink2 the genetic markers are defined. Next,
frequencies for different populations are imported using .freq files. The
format is
M rs1234
A C 0.2
A G 0.8
Where M and A are to define where a markers starts and where the alleles
start.
Below we provide some example files for commonly used MPS/NGS panels.
|
Panel |
Reference |
#Markers |
Map file |
Freq files |
FamLink project |
Comment |
|
FORCE |
3930 |
TBA |
Freq files for seven populations, many thanks
to Chris Phillips and María de la Puente for preparing those files |
|||
|
KIntelligence |
9930 |
TBA |
TBA |
Removes some 300 SNPs from the published vcf |
||
|
ICMP |
1241 |
TBA |
TBA |
|
||
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
*TBA=To be added
You may send comments to daniel.kling@rmv.se