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<prev • 261 results • page 1 of 9 • next >
6
votes
1
answer
383
views
1
answer
(Sanity check) Too many SNPs?
filter next-gen variant written 8 months ago by rightmirem • 50 • updated 7 days ago by Biostar ♦♦ 20
16
votes
4
answers
224
views
8 follow
4
answers
Forum: Create a File format to store Variant
hgvs forum json variant standard written 21 days ago by sacha • 1.3k • updated 20 days ago by d-cameron • 1.8k
0
votes
0
answers
98
views
0
answers
Why VarScan always get more somatic variants than other caller
varscan variant written 21 days ago by CY • 140
5
votes
1
answer
138
views
1
answer
How to know if a variant is sequencing or mapping artifact?
vcf variant freebayes written 22 days ago by kspata • 30 • updated 22 days ago by finswimmer ♦ 3.6k
0
votes
0
answers
179
views
0
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SNPEff not showing SNP
annotation forum snpeff variant snp written 11 weeks ago by sanjay.bpkihs • 0 • updated 25 days ago by cpad0112 • 7.6k
3
votes
1
answer
136
views
5 follow
1
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Get variant position knowing the gene name, base change, and NM#
gene genome coordinates variant written 26 days ago by bisansamara • 10 • updated 26 days ago by Tao • 220
2
votes
1
answer
115
views
1
answer
How does variant callers deal with N in the reference sequence?
genome reference N variant call written 5 weeks ago by pyjiang2 • 20 • updated 5 weeks ago by JC ♦ 6.7k
2
votes
1
answer
107
views
1
answer
Read position bias (RPB and PV4) fields from samtools mpileup: how to get them?
rpb variant mpileup snp call written 7 weeks ago by Macspider • 2.4k • updated 7 weeks ago by al.bodrug • 50
0
votes
0
answers
112
views
0
answers
Variant enrichment quantification
enrichment variant clone statistics written 8 weeks ago by NaskoMak • 0
0
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0
answers
96
views
0
answers
Find polymorphic/variant sequences of a given protein sequence.
variant sequence polymorphism written 8 weeks ago by db4 • 0
0
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0
answers
72
views
0
answers
Variant distance bias (VDB) in VCF format: how to compute properly?
vcf vdb variant distance bias written 9 weeks ago by Macspider • 2.4k
0
votes
1
answer
533
views
1
answer
Variant calling on single-cell data
single-cell variant snp written 6 months ago by vinvan • 10 • updated 9 weeks ago by oneillkza • 60
3
votes
1
answer
141
views
1
answer
Inconsistency of allele depth in BAM and VCF
vcf allele depth variant bam written 10 weeks ago by CY • 140 • updated 10 weeks ago by Noushin N • 530
0
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0
answers
101
views
0
answers
SNP/Mbp rate weird, any known bias/artifact?
mbp calling variant snp bias written 3 months ago by Macspider • 2.4k
2
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1
answer
258
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1
answer
Problems left-normalizing variants with bctools, GATK, combining with ANNOVAR annotations
annotation variant written 3 months ago by steve • 1.5k
0
votes
2
answers
210
views
2
answers
Identify the nearest common SNP to a given rare variant
bioinformatics analysis variant snv snp written 3 months ago by bisansamara • 10
5
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1
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1.6k
views
1
answer
How to visualize large VCF files
vcf variant calling snps variant snp written 2.2 years ago by bioinforesearchquestions • 140 • updated 3 months ago by Biostar ♦♦ 20
0
votes
0
answers
159
views
0
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Joining Clinvar with variant data using sql
23andme variant clinvar written 3 months ago by iCode • 0
8
votes
1
answer
464
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6 follow
1
answer
Forum: SNP calling in 2018
gatk forum variant snp written 4 months ago by Picasa • 350 • updated 4 months ago by WouterDeCoster ♦ 30k
0
votes
0
answers
322
views
0
answers
[ti_index_core] the chromosome blocks not continuous at line xxxx, is the file sorted? [pos 1]
vcf variant index written 4 months ago by shubhra.bhattacharya • 40
3
votes
3
answers
5.6k
views
5 follow
3
answers
How To Get Consensus Sequence Including Variant From A Vcf File For Several Individuals...?
vcf consensus calling variant gatk written 5.8 years ago by Bioch'Ti • 1000 • updated 5 months ago by boczniak767 • 600
0
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0
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132
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0
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Annotate variants based on site mutability
annotation cpg variant mutability written 5 months ago by adamlaurajacob • 0
0
votes
1
answer
1.5k
views
1
answer
freebayes haplotype calling (phased variants)
freebayes haplotype phase variant phased written 2.3 years ago by mark.rose • 10 • updated 5 months ago by gkuffel22 • 50
14
votes
1
answer
3.3k
views
8 follow
1
answer
Publicly Available Tumor/Normal Illumina Data For Evaluation Of Somatic Variant Callers
somatic variant written 5.8 years ago by Malachi Griffith ♦ 16k • updated 7 months ago by yhrytsenko • 0
0
votes
0
answers
328
views
0
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how can i get acertainment sample size in dpSNP for all variants of some 15000 genes
gene dbsnp variant written 8 months ago by jananiinfo14 • 0 • updated 7 months ago by Biostar ♦♦ 20
4
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1
answer
2.1k
views
1
answer
Getting A Large Vcf File On Variant Calling Through Gatk
vcf gatk variant samtools written 5.7 years ago by Saket Choudhary • 80 • updated 7 months ago by Biostar ♦♦ 20
1
vote
1
answer
336
views
1
answer
Comparison and Visualization of VCF derived from Two Genomes (tolerant and susceptible) #DNA-Seq
vcf wgs variant dnaseq written 7 months ago by venuraherathphoto • 0 • updated 7 months ago by Sergey Naumenko • 330
0
votes
1
answer
323
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1
answer
Blog: Clarifying the concept of clinical annotation vs bioinformatic annotation
annotation reference data variant blog written 8 months ago by syntax • 30 • updated 8 months ago by Devon Ryan ♦ 81k
16
votes
2
answers
545
views
5 follow
2
answers
Alternate nucleotide is more frequent than reference nucleotide. OMG I'm dizzy. How do I stop the twirl?
exome maf variant written 8 months ago by Farrel • 130 • updated 8 months ago by Emily_Ensembl ♦ 15k
0
votes
0
answers
325
views
0
answers
does varscan2 trio mode perform joint genotyoing?
trio varscan joint genotyping variant germline written 8 months ago by lait • 80
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