• dbSNP chromosomes description

    What is the difference between the files chr Unknown and chr Not On in the dbSNP of NCBI?

  • Regarding deleted SNPs (in dbSNP) due to mapping or clustering errors found in VCF file

    Need some input from the community concerning the question in title -

    Some of the SNPs deposited...

  • Difference between dbSNP vcfs

    What are the differences between the dbSNP vcf from NCBI/EBI and Sanger? They are both based on G...

  • Known-variant and AF-only files of GATK Mutect2 on Mouse DNA sequencing data

    I have some mouse C57 targeted panel sequencing data. I want to call somatic variants using GATK....

  • How to get chimpanzee SNP data from NCBI?

    Hello,
    I want to get chimpanzee SNP data from dbSNP. However, dbSNP web have not provide geneti...

  • what is the difference between calling variants with and without interval list?

    I used following command
    ##With interval list
    ###Step1
    gatk HaplotypeCaller --input $sample....

  • ERROR MESSAGE: QD annotation at VariantRecalibrator

    I am performing trio analysis with Exome sequencing data.
    I am using GATK 3.8.
    I am at VariantRe...

  • dbsnp for rat

    Hi,

    I need to download dpsnp of rat. I used dbsnp ftp site and found under organisms there are t...

  • Are there any "complete" VCF files for tomato available?

    I'm following the GATK pipeline for variant calling of tomato whole genome data I am analyzing an...

  • Effect of dbSNP build differences in variant calling

    I want to call variants on prealigned CRAM files for a 1000genomes sample, available for download...

  • dbsnp in vcf format compatible with hg38

    Hello,

    I need to annotate the snps in a vcf file that I generated from hg38 reference.
    I try to...

  • Dbsnp : Best Way To Obtain Data On Snps

    I have variations from different humans (next gen sequence). Some of these variations are known S...

  • Dbsnp132 1000Genomes Vcf File Info Field: Bitfield Structure

    The new 1000Genomes+dbSNP132 resource (ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606/VCF/v4...

  • Vcf annotate does not work

    Hello, colleagues!

    Could you, please, help or give a hint what's wrong?

    My HaplotypeCaller and ...

  • Downloading 1000G file using samtools -b -L results in bam files of different sizes for the same input command

    Hi 

    We are working on the 1000 genomes data and trying to download a subsection of the data usin...

  • Replace vcf in-house variant IDs with dnSNP variant IDs

    I have two vcfs from D.melanogaster. The first has in-house variant identifiers, the second conta...

  • how to download all the complete genomes for mycobacteria from NCBI?

    How to download all the complete genomes for mycobacteria from NCBI?

    I tried downloading the com...



  • Source link