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4
votes
1
answer
144
views
1
answer
Exac and gnomad MAF value in VCF
vcf annovar vep written 12 days ago by Sharon • 30 • updated 12 days ago by Pierre Lindenbaum ♦ 99k
8
votes
3
answers
664
views
3
answers
Protein coding transcripts with vep
annotation vep variants written 19 months ago by onemoreuser • 0 • updated 22 days ago by Biostar ♦♦ 20
4
votes
1
answer
140
views
1
answer
SNP annotation with TFBS and histone marks
annotation tfbs histonemarks vep snp written 4 weeks ago by LNA • 10 • updated 4 weeks ago by Emily_Ensembl ♦ 13k
4
votes
1
answer
336
views
8 follow
1
answer
Installing ensembl 86 VEP and vcf2maf and getting SNP MAFs
maf 1000genomes ensemble vep vcf2maf written 4 months ago by eurioste • 20 • updated 7 weeks ago by Cyriac Kandoth ♦ 4.7k
2
votes
1
answer
184
views
1
answer
SNP annotated outside gene location (Variant Effect Predictor)
ensembl vep snp variant effect predictor written 7 weeks ago by serpalma.v • 10 • updated 7 weeks ago by Denise - Open Targets • 4.0k
4
votes
1
answer
182
views
1
answer
Ensembl VEP 89 Output Format
ensembl vep written 8 weeks ago by bruce.moran • 320 • updated 8 weeks ago by Emily_Ensembl ♦ 13k
0
votes
2
answers
238
views
5 follow
2
answers
VEP and Annovar Annotation
annovar vep written 12 weeks ago by BAGeno • 20
4
votes
2
answers
231
views
2
answers
How to filter mutant allele frequency in Variant Effect Predictor (VEP)?
perl vcf vep ensembl written 4 months ago by kin182 • 0 • updated 4 months ago by EnsemblWill • 550
1
vote
0
answers
146
views
0
answers
Transcript IDs from VEP Annotation
gene transcript id next-gen vep sequencing written 4 months ago by seq_ngs • 0
3
votes
0
answers
217
views
0
answers
Forum: Survey for VEP users
ensembl survey variation vep forum written 5 months ago by Emily_Ensembl ♦ 13k
2
votes
2
answers
295
views
2
answers
How can I make VEP recognize header lines in my VCF?
vcf annotation vep written 5 months ago by Chris Miller ♦ 18k
2
votes
2
answers
380
views
2
answers
LD calculation using LD plugin for VEP
linkage disequilibrium vep ld written 6 months ago by eXpander • 70 • updated 6 months ago by Ben_Ensembl • 470
2
votes
0
answers
350
views
0
answers
Job: 2x Ensembl Jobs, EMBL-EBI, near Cambridge
genome chip-seq job bioinformatics ensembl vep written 7 months ago by Ensembl Helen • 60
1
vote
0
answers
419
views
0
answers
Variant Effect Predictor parameters for custom gff and fasta
fasta gff vep snp written 9 months ago by R.Blues • 60
3
votes
2
answers
1.2k
views
2
answers
VEP failed to parse TBX_GENERIC error
ensembl vep snp variant effect predictor written 2.0 years ago by bruce.moran • 320 • updated 10 months ago by Yunling • 0
0
votes
1
answer
630
views
1
answer
Using VEP: Variant Effect Predictor, how do I get the 1000G global Allele Frequency of my alternate alleles specifically?
annovar vep variant effect predictor written 12 months ago by anp375 • 80 • updated 10 months ago by EnsemblWill • 550
1
vote
1
answer
454
views
1
answer
How do I get GO term annotations using VEP?
gene ensembl vep go ontology written 12 months ago by anp375 • 80 • updated 10 months ago by Ben_Ensembl • 470
3
votes
1
answer
363
views
1
answer
How to select predefine transcript when annotate VCF
vcf annotation snpeff vep written 11 months ago by Paul • 820
1
vote
1
answer
522
views
1
answer
Issues with variant effect predictor installation
perl ubuntu vep variant effect predictor written 11 months ago by cookersjs • 10
3
votes
0
answers
390
views
0
answers
Human ancestor for hg38
human_ancestor vep lof hg38 loftee written 11 months ago by matthias.desmet • 30
5
votes
1
answer
2.1k
views
1
answer
Trouble installing VEP
perl vep written 19 months ago by John • 60
0
votes
0
answers
427
views
0
answers
VCF2MAF does not recognize option --cache-version
software error cache vep vcf2maf written 12 months ago by kjnousia • 0
0
votes
0
answers
535
views
0
answers
Difference between Cosmic Annotation from VEP and directly from COSMIC VCF.
annotation vep written 12 months ago by always_learning • 800
1
vote
1
answer
777
views
1
answer
Plugin 'dbNSFP' of VEP went wrong
annotate software error vep dbnsfp written 13 months ago by ZoeChing • 0
4
votes
2
answers
1.0k
views
2
answers
Multiple VCF files and VEP
software error ensembl sequence vep snp written 2.4 years ago by dav • 0 • updated 14 months ago by Biostar ♦♦ 20
4
votes
1
answer
533
views
1
answer
Question about the consequence types from VEP
snps annotation consequence types vep written 15 months ago by vasilislenis • 70 • updated 15 months ago by Denise - Open Targets • 4.0k
0
votes
1
answer
407
views
1
answer
Protein Sequence identifier to use after annotating variants (Swissprot or Uniparc) ?
ensembl vep uniprot written 15 months ago by aditi.qamra • 230 • updated 15 months ago by Elisabeth Gasteiger • 1.2k
2
votes
1
answer
561
views
1
answer
VEP vs webserver Polyphen scores
polyphen annotation vep missense written 15 months ago by regrant • 10 • updated 15 months ago by Emily_Ensembl ♦ 13k
0
votes
0
answers
489
views
0
answers
Ensembl VEP cannot parse HGVS notation.
hgvs ensemble vep ref_seq parsing written 16 months ago by gmora • 10 • updated 16 months ago by Biostar ♦♦ 20
1
vote
0
answers
531
views
0
answers
Help needed understanding VEP: Allele - the variant allele used to calculate the consequence
next-gen vep snp written 17 months ago by velan • 0
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