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comparison of variants between WGS samples
wgs gatk differences human variants written 27 days ago by cocchi.e8990 • updated 27 days ago by harold.smith.tarheel4.6k
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Genotyping samples at a predetermined list of locations
gatk variants snp genotyping written 6 weeks ago by i.sudbery9.3k • updated 6 weeks ago by bari.ballew230
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MAFtools variant classes mapping
mutations variants written 6 weeks ago by SunRise20190 • updated 6 weeks ago by RamRS30k
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Clustering of SNPs toward same QUAL values
quality freebayes snp variants written 9 weeks ago by Begonia_pavonina20 • updated 9 weeks ago by Biostar ♦♦ 20
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Confused about the AF tag in VCF from samtools/bcftools mpileup
vcf gatk samtools af variants written 11 weeks ago by Makplus T70 • updated 11 weeks ago by Renesh1.9k
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Inserting Variant allele frequency to VCF file
vcf strelka ngs vaf variants written 3 months ago by parvathi.sudha10 • updated 3 months ago by jared.andrews077.3k
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Best tool to merge .vcf files from different variant callers?
vcf gatk annotation snp variants written 5 months ago by j.lunger1810 • updated 3 months ago by Biostar ♦♦ 20
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Filtering phased alleles with GATK
linkage gatk exome variants phased written 3.8 years ago by petersam0 • updated 4 months ago by Biostar ♦♦ 20
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SNPEFF genome build with specific codon usage
annotation snpeff variants written 5 months ago by Stephane Plaisance420 • updated 4 months ago by Biostar ♦♦ 20
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Find mutations that are spatially clustered?
genome clustering granges variants written 6 months ago by Rubal330 • updated 6 months ago by bernatgel2.7k
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merge VCF single variants G>A and C>A into GC>AA
vcf exome variants hgvs written 8 months ago by cocchi.e8990 • updated 8 months ago by GokalpC50
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Flanking sequence retreival
fasta sequence extraction variants written 8 months ago by nadiabeg.comsats0 • updated 8 months ago by finswimmer13k
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Using dbSNP dataset
vcf dbsnp variants written 8 months ago by rotemkat0
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How to write HGVS nomination for noncoding intergenic variants
genome hgvs snp variants written 9 months ago by hsamireh0 • updated 9 months ago by manuel.belmadani1.2k
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index tabulate file to get chrom, pos, ref, alt
indexing tabix coordinates variants written 9 months ago by damian.loska20 • updated 9 months ago by Pierre Lindenbaum130k
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