Question: bed to vcf format conversion
0
gravatar for prathikkv_1992
3.2 years ago by
prathikkv_19920 wrote:

Hi Guys,new to biostarts and new to bioinformatics. I am trying to convert my output obtained from liftover of hg38 to hg19 which is in .bed format to .vcf format. I am finding no help on google.

.bed ---> .vcf

Thanks in advance.

format conversion .bed .vcf • 6.2k views
ADD COMMENTlink modified 3.2 years ago by Denise - Open Targets5.0k • written 3.2 years ago by prathikkv_19920
0
gravatar for natasha.sernova
3.2 years ago by
natasha.sernova3.5k
natasha.sernova3.5k wrote:

See these posts:

Create VCF file from .bim, .fam and .bed file

Convert BED(UCSC) to VCF

and this Rpackage description:

http://rpackages.ianhowson.com/cran/bedr/man/bed2vcf.html

ADD COMMENTlink modified 3.2 years ago • written 3.2 years ago by natasha.sernova3.5k
0
gravatar for Denise - Open Targets
3.2 years ago by
UK, Hinxton, EMBL-EBI
Denise - Open Targets5.0k wrote:

Input the BED file into the Variant Effect Predictor, and get the output as VCF.

ADD COMMENTlink written 3.2 years ago by Denise - Open Targets5.0k
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