How to craete snps map file?
Hi every one, I have a list of SNPs (one millions) for the below format:
SNPs name
rs7552632
chr1:109457160
rs7552714
rs7552841
rs7553178
I need to create SNPs.map file with the below format:
SNPs name Chr position
Rs678678 1 1561131345
I download from dbSNPS all the SNPS location.
I need to get one line from snps list and search the reference file and retrieve the snps chr and its position. Is there is any R package or script to do it?
Some snps name written in chr#: position, so I need to separate the chromosome number from its position.
I appreciate any help.
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Get data from KEGG Brite
written by sizeineb •
-
extracting SNPs from .vcf file along with CHR and POS
written by anamaria
-
Slicing a vcf file to just a few thousand SNPs with PyVCF.
written by Pedro Morell •
-
getting tag snps
written by 496527 •
-
Urgent councel in performing the class setup SNP
written by h.aljofi •
-
How tp split snps name?
written by forever
-
SNPS assocation with different data format
written by forever
-
creating ped file from txt file
written by forever
-
retrieval of population specific SNPs
written by 12021560-002 •
-
Snps And Their Allele Change Information
written by sxzhuxu •
I see you have a lot of questions which could be solved be a quite basic script, so probably you should dive into a tutorial to learn basic R or python (or any other language).