Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Tutorials
Tools
Jobs
Forum
Planet
All »
Home
Log In
Showing: variant-calling • reset
or   Classic search
<prev • 66 results • page 1 of 3 • next >
9
votes
1
answer
1.4k
views
1
answer
Why a true variant is not getting called by Haplotypecaller.
variant-calling haplotypecaller next-gen written 2.3 years ago by AshishKS • 10 • updated 4 weeks ago by Biostar ♦♦ 20
1
vote
0
answers
141
views
0
answers
What do the freebayes parameters --pooled-continuous/--pooled-discrete mean?
variant-calling next-gen freebayes snp written 6 weeks ago by markd • 20
5
votes
1
answer
192
views
1
answer
Keep Format and Individual fields when annotating VCF with VEP
vcf annotation vep variant-calling written 11 weeks ago by jsneaththompson • 50 • updated 10 weeks ago by Emily_Ensembl ♦ 15k
1
vote
1
answer
183
views
1
answer
GATK: .ped vs .fam and missing values
variant-calling gatk snp written 3 months ago by rmf • 280 • updated 3 months ago by Kevin Blighe ♦ 23k
4
votes
1
answer
1.6k
views
1
answer
How To Phase Haplotypes In A Highly Polymorphic Genome
vcf variant-calling written 4.5 years ago by Adrian Pelin • 2.1k • updated 5 months ago by Biostar ♦♦ 20
5
votes
0
answers
1.2k
views
7 follow
0
answers
Samtools: merge and mpileup vs mpileup alone for variant-calling with multiple BAM
variant-calling merge samtools mpileup snp written 17 months ago by Rob • 90 • updated 5 months ago by Biostar ♦♦ 20
1
vote
2
answers
297
views
2
answers
Regenotype vcf using some samples as reference
vcf variant-calling snp written 5 months ago by rmf • 280
0
votes
1
answer
278
views
1
answer
phasing SNPs with 3 siblings
variant-calling snp written 5 months ago by rmf • 280 • updated 5 months ago by Pierre Lindenbaum ♦ 109k
2
votes
1
answer
292
views
1
answer
Identifying variants differing between control/treatment
variant-calling gatk indel snp written 6 months ago by rmf • 280 • updated 6 months ago by Pierre Lindenbaum ♦ 109k
0
votes
1
answer
272
views
1
answer
Genotype calls for a list of variable sites
variant-calling gatk genotype-calling written 9 months ago by Jautis • 260 • updated 9 months ago by Pierre Lindenbaum ♦ 109k
5
votes
1
answer
2.3k
views
1
answer
What does BAF mean?
variant-calling baf written 13 months ago by Brian Bushnell ♦ 15k • updated 13 months ago by bernatgel • 1.2k
0
votes
1
answer
691
views
1
answer
Calculate mean_GQ value from individual GQ values in a multi-sample VCF file
vcf gatk next-gen variant-calling sequencing written 16 months ago by aham • 30 • updated 16 months ago by Petr Ponomarenko • 2.5k
0
votes
0
answers
601
views
0
answers
complex indel precludes detection of overlapping SNPs
variant-calling pooled sample freebayes written 16 months ago by harold.smith.tarheel • 4.1k
2
votes
0
answers
1.3k
views
0
answers
Next-Generation Sequecing And Quantitative Traits Association Study
variant-calling ngs sequencing written 4.5 years ago by sorento7 • 30 • updated 19 months ago by Biostar ♦♦ 20
3
votes
1
answer
1000
views
1
answer
Extract allele frequencies from VCF
variant-calling vcf crisp written 22 months ago by mufernando • 10 • updated 22 months ago by Noushin N • 530
1
vote
1
answer
629
views
1
answer
Coming with a result with many VCF files?
vcf variant-calling mutation-calling written 2.2 years ago by morovatunc • 360 • updated 2.1 years ago by Denise - Open Targets • 4.5k
0
votes
0
answers
1.2k
views
0
answers
Using GIAB exome data to test targetome variant-calling pipeline
variant-calling whole-exome targetome giab written 2.4 years ago by nbhardwaj • 100
4
votes
6
answers
12k
views
11 follow
6
answers
Variant Calling With Bcftools Call
variant-calling bcftools samtools mpileup written 4.3 years ago by tayebwajb • 90 • updated 2.4 years ago by vladimir.kovacevic • 60
2
votes
1
answer
1.2k
views
1
answer
Sensitivity of variant calling
variant-calling next-gen sequencing written 3.1 years ago by szuszmok • 40 • updated 3.1 years ago by Len Trigg • 1.2k
42
votes
2
answers
17k
views
16 follow
2
answers
Difference Between Somatic And Germline Variant Calling?
variant-calling somatic gatk written 4.9 years ago by William • 4.2k • updated 3.2 years ago by Biostar ♦♦ 20
7
votes
1
answer
2.3k
views
5 follow
1
answer
When Is A Heterozygous Call Not Heterozygous?
exome variant-calling human written 4.4 years ago by Chris Cole • 660 • updated 3.3 years ago by Biostar ♦♦ 20
1
vote
1
answer
2.1k
views
1
answer
NOT RESETTING NORMAL error using Varscan2
variant-calling somatic varscan2 snp written 3.6 years ago by Jordan • 1.0k • updated 3.6 years ago by Ying W • 3.8k
91
votes
6
answers
29k
views
41 follow
6
answers
Best Software For Detection Of Somatic Mutations From Matched Tumor:Normal Ngs Data
variant-calling somatic mutation variant snv written 6.3 years ago by Travis • 2.8k • updated 3.6 years ago by Malachi Griffith ♦ 16k
2
votes
0
answers
1.7k
views
0
answers
Problem generating VCFs from MuTect variant caller
variant-calling vcf mutect written 3.8 years ago by Jordan • 1.0k
4
votes
2
answers
2.7k
views
2
answers
Vcf File From Mpileup ... What Next
variant-calling snps samtools written 4.4 years ago by Dataminer • 2.5k • updated 4.0 years ago by Biostar ♦♦ 20
3
votes
0
answers
2.0k
views
0
answers
Need help understanding read depth for somaticsniper vcf's
variant-calling vcf somaticsniper depth written 4.0 years ago by Jordan • 1.0k
4
votes
1
answer
2.1k
views
1
answer
How To Represent Two Different Indels At The Same Position In A Multisample Vcf?
vcf variant-calling sequencing written 4.8 years ago by Luca Beltrame • 190 • updated 4.2 years ago by Biostar ♦♦ 20
2
votes
1
answer
1.2k
views
1
answer
Is there a way to know which variant caller has been used for calling variants in TCGA?
variant-calling tcga pipeline written 4.2 years ago by Jordan • 1.0k • updated 4.2 years ago by Charles Warden ♦ 5.0k
0
votes
1
answer
1.4k
views
1
answer
Comparing Exomes -How to get ALL variants
exome variant-calling samtools written 4.3 years ago by bernatgel • 1.2k
5
votes
0
answers
2.5k
views
0
answers
News: Broad Gatk Haplotypecaller Speed Improved 2-4 X By Cooperation With Intel, And Incremental Multi-Sample Calling Made Possible!
variant-calling gatk news written 4.3 years ago by William • 4.2k
<prev • 66 results • page 1 of 3 • next >
Recent Votes
Recent Locations • All »
  • Australia, 1 minute ago
  • India, 2 minutes ago
  • Royan Institute, Tehran, Iran, 4 minutes ago
  • United Kingdom, 5 minutes ago
  • Belgium, 5 minutes ago
  • Bioinformatics Center, Pune, 6 minutes ago
Recent Awards • All »
Recent Replies
Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1005 users visited in the last hour