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<prev • 346 results • page 1 of 12 • next >
10
votes
4
answers
25k
views
5 follow
4
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Help On Merging Vcf Files By Using Vcftools
vcf merge vcftools written 9.4 years ago by Jianfengmao • 310 • updated 3 days ago by Biostar ♦♦ 20
1
vote
0
answers
88
views
0
answers
Relatedness check for trio samples (Proband/Parents)
vcf relatedness next-gen vcftools snp written 20 days ago by kaur.supan13 • 0
1
vote
1
answer
64
views
1
answer
remove listed singletons from vcftools output
genome next-gen vcftools sequencing written 4 weeks ago by QPaps04 • 0
0
votes
0
answers
81
views
0
answers
Filter SNPs for DP using mean + 2*SD
filter next-gen vcftools snp depth written 6 weeks ago by QPaps04 • 0
2
votes
2
answers
1.9k
views
2
answers
Split a large VCF into user defined regions
vcf vcftools sequencing written 3.7 years ago by zelia.worman • 0 • updated 10 weeks ago by nmzt43 • 0
0
votes
1
answer
137
views
1
answer
How to pass a variable to vcftools --weir-fst-pop
fst vcftools bash written 12 weeks ago by gary.napier • 20
1
vote
1
answer
152
views
1
answer
Filtering VCF file by INFO flag
vcf vcftools written 3 months ago by zhamouda • 0
8
votes
3
answers
4.9k
views
8 follow
3
answers
SnpMatrix from VCF file
vcf matrixeqtl snpmatrix vcftools eqtl written 3.2 years ago by Dhana • 80 • updated 3 months ago by cannilay • 20
2
votes
2
answers
184
views
2
answers
vcftools separate only selected chrom allocation from 4gb vcf file
vcf filter allocation vcftools written 4 months ago by dev.info.2021 • 0
0
votes
1
answer
369
views
1
answer
How to filter SNP and Indel under these criteria?
indel vcffilter freebayes vcftools snp written 6 months ago by r00628112 • 10 • updated 4 months ago by devarora • 150
0
votes
0
answers
167
views
0
answers
bcftools error when re-annotating the FILTER column of a VCF when multiple ";" delimited FILTER values exist
vcf bcftools vcftools written 5 months ago by curious • 280
0
votes
0
answers
170
views
0
answers
How to calculate linkage disequilibrium (LD) with only two genomes?
linkage disequilibrium plink ld vcftools written 5 months ago by KL_STKLBK • 0
1
vote
0
answers
342
views
0
answers
vcftools not ouputting log file when run from perl
vcf vcftools written 5 months ago by dec986 • 210
0
votes
1
answer
147
views
1
answer
VCFTools Removing Individuals and SNP counting
vcftools snp written 5 months ago by adnichols • 0 • updated 5 months ago by inedraylig • 20
0
votes
1
answer
233
views
1
answer
Require Genotypes In Vcf File In Order To Output Frequency Statistics
vcf allele frequency vcftools af written 6 months ago by ja4123 • 0
1
vote
0
answers
339
views
0
answers
Why is VCFTools excluding so many SNPs in its Tajima D calculation?
vcftools snp population genetics written 7 months ago by Ace • 70 • updated 6 months ago by Biostar ♦♦ 20
0
votes
0
answers
494
views
0
answers
vcftools Tajima's D calculation
vcftools tajimasd selection written 6 months ago by biogirl • 190
0
votes
0
answers
183
views
0
answers
Error with bcftools and vcftools and removing individuals
vcf bcftools vcftools written 6 months ago by seta • 1.3k
1
vote
0
answers
1.3k
views
5 follow
0
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Calculate Fis (inbreeding coefficient)
vcftools snp written 11 months ago by mostafarafiepour • 70 • updated 6 months ago by ginushika • 0
1
vote
1
answer
229
views
1
answer
Filtering out by gene and samples from VCF files
vcf gene snp vcftools gtex written 7 months ago by gprashant17 • 70 • updated 7 months ago by Pierre Lindenbaum ♦ 128k
10
votes
3
answers
976
views
3
answers
Execute commands in Bash Chunk in Rmarkdown
samtools rmarkdown vcftools rstudio written 8 months ago by M.O.L.S • 10
0
votes
0
answers
198
views
0
answers
Add additional common INFO flags to a vcf ?
vcf info_flags vcftools snp written 7 months ago by nbarthelemy01 • 10
0
votes
0
answers
588
views
0
answers
inbreeding coefficient (F) with vcftools
vcftools written 9 months ago by Sam • 140 • updated 8 months ago by Biostar ♦♦ 20
0
votes
1
answer
361
views
1
answer
How to replicate vcftool's sliding window SNP density?
vcftools snp sequencing written 8 months ago by serpalma.v • 40 • updated 8 months ago by Vitis • 2.3k
0
votes
1
answer
196
views
1
answer
Selecting set of SNPs using vcftools
vcf vcftools written 8 months ago by krishnapashu912 • 20 • updated 8 months ago by bari.ballew • 220
0
votes
0
answers
211
views
0
answers
bcftools merge creates high missingness rate
bcftools plink vcftools written 8 months ago by biogirl • 190
0
votes
0
answers
709
views
0
answers
bcftools and VCFTools consensus functionality both not working unless there are INDELS in VCF input
vcf fasta bcftools vcftools written 9 months ago by rc16955 • 70
3
votes
2
answers
5.7k
views
2
answers
Best way to query VCF for specific variants
vcf annotation bcftools vcftools written 4.4 years ago by Sean • 210 • updated 10 months ago by bari.ballew • 220
0
votes
1
answer
258
views
1
answer
Separating a region of the VCF file
vcftools snp written 10 months ago by mostafarafiepour • 70
5
votes
2
answers
721
views
2
answers
VCF merge or concatenate?
vcf vcftools snp written 10 months ago by rokragna295 • 0 • updated 10 months ago by harish • 280
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