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<prev • 64 results • page 1 of 3 • next >
7
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3
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2.4k
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3
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How to add custom fields to the VCF files?
vcf annotation phasing snp manipulation written 2.1 years ago by kirannbishwa01 • 860 • updated 16 days ago by sm.hashemin • 60
1
vote
1
answer
103
views
1
answer
phase a non-model genome
phasing written 19 days ago by devon.orourke • 0
0
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0
answers
58
views
0
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Phasing non-human genomes with Beagle - do I need to divide subjects by population?
snp phasing beagle written 23 days ago by mstagliamonte • 0
0
votes
0
answers
124
views
0
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Benchmarking datasets for Haplotype phasing
genome shapeit haplotype na12891 phasing written 5 weeks ago by kirannbishwa01 • 860
0
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0
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120
views
0
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Phase 2.1 - question about input file
phase 2.1 phasing snp written 8 weeks ago by mstagliamonte • 0
0
votes
1
answer
178
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1
answer
haplotype phasing in duos
haplotype phasing duos rna-seq trios written 4 months ago by lait • 120 • updated 11 weeks ago by mike • 40
0
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0
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259
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0
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SHAPEIT Segmentation Fault on Input Read-In
genome phasing written 11 weeks ago by nnn1 • 0
0
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0
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163
views
0
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Phasing Confidence Values using Shapeit2
haplotype estimation wgs phasing shapeit2 written 3 months ago by Mike Vermeulen • 0
6
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2
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227
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5 follow
2
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How do variant callers get genotype info?
variant calling indel snp phasing written 3 months ago by afzm • 20 • updated 3 months ago by Jeremy Leipzig ♦ 17k
1
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0
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181
views
0
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Genotype representation with 0, 1, 2 - what do they mean?
representation imputation genotype phasing gwas written 3 months ago by Volka • 20
9
votes
1
answer
1.5k
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1
answer
Convert IMPUTE2 to VCF while keeping phase information
vcf impute2 phasing conversion written 2.8 years ago by lkmklsmn • 820 • updated 4 months ago by Biostar ♦♦ 20
0
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0
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245
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0
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use gatk phased vcf as input file of HapCut2
hapcut2 gatk vcf phasing written 4 months ago by Peter Chung • 70 • updated 4 months ago by RamRS ♦ 17k
2
votes
0
answers
258
views
0
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Statistical Genetics - What information is required for haplotype phasing in a novel, admixed population?
exome haplotype admixture phasing written 5 months ago by anp375 • 140
0
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0
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139
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0
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extractPIRs is throwing an ERROR
shapeit extractpirs phasing written 5 months ago by nkausthu • 20 • updated 5 months ago by genomax ♦ 55k
0
votes
0
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348
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0
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Interpreting phased data from Beagle
haplotype imputation genotype phasing beagle written 6 months ago by chadapohn.chaosrikul • 0
4
votes
1
answer
637
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1
answer
Phasing without a reference panel
hapmap population genotype phasing written 7 months ago by chadapohn.chaosrikul • 0 • updated 7 months ago by Wietje • 150
1
vote
1
answer
396
views
1
answer
Plink. Convert ped files of artificially mixed population into vcf using recode
vcf plink phasing written 8 months ago by Mr Locuace • 80 • updated 8 months ago by Wietje • 150
2
votes
0
answers
420
views
0
answers
Problem phasing Indels
indels phasing beagle written 9 months ago by hdtms • 20
0
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0
answers
411
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0
answers
phasing variants produced by varscan
gatk trio analysis varscan phasing variants written 9 months ago by lait • 120
9
votes
1
answer
500
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6 follow
1
answer
Can phasing or pre-phase during basecall cause indel?
indel phasing written 9 months ago by CY • 190 • updated 9 months ago by Kevin Blighe ♦ 28k
0
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0
answers
438
views
0
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Converting BED files for SHAPEIT and IMPUTE2
alignment imputation phasing written 10 months ago by gty18 • 0
0
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0
answers
403
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0
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Is this a good workflow to find denovo mutations in trios?
whole exome sequencing denovo phasing trios written 11 months ago by lait • 120
11
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2
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721
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5 follow
2
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phasing variants to find de novos
de novo ngs phasing whole exome sequencing written 11 months ago by lait • 120 • updated 11 months ago by Len Trigg • 1.2k
0
votes
0
answers
519
views
0
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SHAPEIT error after run: x samples are included in several duos/trios
shapeit inferring haplotypes phasing snp written 12 months ago by c_barbarosie • 0
0
votes
0
answers
436
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0
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Is there a phasing algorithm or tool that first determines undeniably present haplotypes?
hardy weinberg haplotype phasing beagle written 14 months ago by anp375 • 140
0
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0
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555
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0
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error when using shapeit2 phasing with vcf from GATK
vcf shapeit phasing written 14 months ago by Loveinheaven • 0 • updated 14 months ago by h.mon ♦ 19k
0
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1
answer
546
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1
answer
Phasing alleles, indel gap filled with reference.
allele alignment samtools phasing snp written 14 months ago by Vincent Manzanilla • 20
0
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0
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452
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0
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Beagle Error Reading in .PL file
genome phasing beagle written 14 months ago by karl.fetter • 0
0
votes
1
answer
817
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1
answer
HapCUT2 using GATK results
hapcut2 gatk vcf phasing written 20 months ago by jyu429 • 120 • updated 14 months ago by lloydlow • 0
0
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0
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468
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0
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Where is "inference" applied in Haplotype inference?
haplotyping haplotype phase inference phasing written 17 months ago by veronicaschroeder78 • 100
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