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<prev • 324 results • page 1 of 11 • next >
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bcftools and VCFTools consensus functionality both not working unless there are INDELS in VCF input
vcf fasta bcftools vcftools written 8 days ago by rc16955 • 60
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2
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3.9k
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2
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Best way to query VCF for specific variants
vcf annotation bcftools vcftools written 3.6 years ago by Sean • 180 • updated 15 days ago by bari.ballew • 160
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77
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1
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Separating a region of the VCF file
vcftools snp written 19 days ago by mostafarafiepour • 60
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2
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162
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2
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VCF merge or concatenate?
vcf vcftools snp written 4 weeks ago by rokragna295 • 0 • updated 29 days ago by harish • 220
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147
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vcftools counts output not written to file
vcf frequency vcftools snp counts written 3 months ago by spider_monkey • 10 • updated 4 weeks ago by Biostar ♦♦ 20
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228
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Calculate Fis (inbreeding coefficient)
vcftools snp written 5 weeks ago by mostafarafiepour • 60
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1
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148
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1
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Hot to retrieval a SNP from a very big vcf file by position with tabix
vcf tabix vcftools snp written 6 weeks ago by vw • 20
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1
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2.9k
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1
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help with vcftools filtering on individuals
vcftools written 23 months ago by schisler • 30 • updated 6 weeks ago by pduluth96 • 10
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2
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2
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Installing Vcftools
vcftools written 7.1 years ago by nwaforcharles • 20 • updated 7 weeks ago by Biostar ♦♦ 20
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119
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vcftools merge: Incorrect number of F1R2 fields (2) at chr12:29486505, cannot merge.
merge f1r2 vcftools snp written 7 weeks ago by Shicheng Guo • 7.7k
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118
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How to apply vcftools --diff to identify vcf-specific variants/records
--diff --diff-site vcftools written 9 weeks ago by Shicheng Guo • 7.7k
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135
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Linkage disequilibrium from multi-sample vcf file
vcf snpeff vcftools ld written 9 weeks ago by felipead66 • 30 • updated 9 weeks ago by RamRS ♦ 23k
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143
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1
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Exclude sites on the basis of the proportion of missing data using BCFTOOLS
genome vcf bcftools vcftools written 10 weeks ago by GabrielMontenegro • 530
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Replace missing SNPs of one individual with reference alleles in a VCF file
bcftools vcftools snp sequencing written 11 weeks ago by amitgourav.ghosh12 • 50 • updated 11 weeks ago by zx8754 ♦ 7.9k
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3
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11 follow
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How To Separate Snp Variants From Indel Variants In The Same Vcf File
vcf vcftools written 8.4 years ago by Jianfengmao • 310 • updated 11 weeks ago by rodd • 50
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295
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vcftools Warning: Expected at least 2 parts in FORMAT entry
vcftools written 11 weeks ago by Zoey Zou • 40
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3
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1.1k
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3
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Updating allele frequency (AF) and minor allele frequency (MAF) INFO fields in .vcf
vcf imputation qc vcftools snp written 17 months ago by JSEM • 20 • updated 3 months ago by seta • 1.2k
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248
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Tajima's D equation - VCFtools
tajima vcftools written 3 months ago by bwczech • 70
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237
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BCF Tools Filter on 1000Genomes Annotation
annotation bcftools vcftools filter written 4 months ago by jon.klonowski • 30
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320
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How to turn current VCF into a VCF with genotype and rsID in same file
vcf bcftools vcftools written 4 months ago by austinkjensen5 • 0 • updated 4 months ago by Kevin Blighe ♦ 46k
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2
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Merge vcf files from Multiple Samples
vcf vcftools written 5.3 years ago by Ron • 970 • updated 4 months ago by Biostar ♦♦ 20
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3
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10 follow
3
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How to add trio information to VCF or PED format (to compute Mendel error in Plink)
plink snp vcftools written 2.4 years ago by olavur • 100 • updated 4 months ago by Biostar ♦♦ 20
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278
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How to detect outliers from either (a) SNP-Fst or (b) Window-Fst distributions?
fst vcftools written 4 months ago by serpalma.v • 20 • updated 4 months ago by h.mon ♦ 26k
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1
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Add rsid to LD output from vcftools
vcf snp ld vcftools written 3.8 years ago by jfertaj • 90 • updated 4 months ago by zx8754 ♦ 7.9k
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416
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Filtering SNPS by minimum LD value in bcftools?
vcf bcftools vcftools ld r2 written 5 months ago by RNAseqer • 110
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1
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254
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1
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VCFTOOLS won't read my vcf file
vcf vcftools snp written 5 months ago by wruzic1 • 0
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302
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0
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Splitting .vcf file
wgs vcftools written 5 months ago by F • 3.4k
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755
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1
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How to extract proxy SNPs using 1000G vcf for a list of SNPs
1000g proxy vcftools snp plink written 5 months ago by janhuang.cn • 150 • updated 5 months ago by chrchang523 ♦ 5.5k
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25k
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2
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Convert VCFf file to plink ped/map format while filtering the SNPs
plink map ped vcftools written 4.9 years ago by roll • 290 • updated 5 months ago by hakimeazarafra • 0
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2
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493
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2
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Allele frequency visualization
R stacks vcftools snp written 8 months ago by jaafari.omid • 50 • updated 5 months ago by msimmer92 • 200
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