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4
votes
2
answers
110
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2
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How to filter mutant allele frequency in Variant Effect Predictor (VEP)?
perl vcf vep ensembl written 12 days ago by kin182 • 0 • updated 10 days ago by EnsemblWill • 500
1
vote
0
answers
67
views
0
answers
Transcript IDs from VEP Annotation
gene transcript id next-gen vep sequencing written 11 days ago by seq_ngs • 0
3
votes
0
answers
80
views
5 follow
0
answers
Installing ensembl 86 VEP and vcf2maf and getting SNP MAFs
maf 1000genomes ensemble vep vcf2maf written 13 days ago by eurioste • 20
3
votes
0
answers
137
views
0
answers
Forum: Survey for VEP users
ensembl survey variation vep forum written 6 weeks ago by Emily_Ensembl ♦ 11k
1
vote
2
answers
156
views
2
answers
How can I make VEP recognize header lines in my VCF?
vcf annotation vep written 7 weeks ago by Chris Miller ♦ 18k
2
votes
2
answers
265
views
2
answers
LD calculation using LD plugin for VEP
linkage disequilibrium vep ld written 12 weeks ago by eXpander • 60 • updated 11 weeks ago by Ben_Ensembl • 270
2
votes
0
answers
280
views
0
answers
Job: 2x Ensembl Jobs, EMBL-EBI, near Cambridge
genome chip-seq job bioinformatics ensembl vep written 3 months ago by Ensembl Helen • 60
1
vote
0
answers
292
views
0
answers
Variant Effect Predictor parameters for custom gff and fasta
fasta gff vep snp written 5 months ago by R.Blues • 60
3
votes
2
answers
1.0k
views
2
answers
VEP failed to parse TBX_GENERIC error
ensembl vep snp variant effect predictor written 21 months ago by bruce.moran • 210 • updated 6 months ago by Yunling • 0
0
votes
1
answer
506
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 8 months ago by anp375 • 80 • updated 6 months ago by EnsemblWill • 500
1
vote
1
answer
366
views
1
answer
How do I get GO term annotations using VEP?
gene ensembl vep go ontology written 8 months ago by anp375 • 80 • updated 6 months ago by Ben_Ensembl • 270
3
votes
1
answer
275
views
1
answer
How to select predefine transcript when annotate VCF
vcf annotation snpeff vep written 7 months ago by Paul • 600
1
vote
1
answer
395
views
1
answer
Issues with variant effect predictor installation
perl ubuntu vep variant effect predictor written 7 months ago by cookersjs • 10
3
votes
0
answers
287
views
0
answers
Human ancestor for hg38
human_ancestor vep lof hg38 loftee written 8 months ago by matthias.desmet • 30
4
votes
1
answer
1.6k
views
1
answer
Trouble installing VEP
perl vep written 15 months ago by John • 50
0
votes
0
answers
332
views
0
answers
VCF2MAF does not recognize option --cache-version
software error cache vep vcf2maf written 8 months ago by kjnousia • 0
0
votes
0
answers
418
views
0
answers
Difference between Cosmic Annotation from VEP and directly from COSMIC VCF.
annotation vep written 8 months ago by always_learning • 780
1
vote
1
answer
615
views
1
answer
Plugin 'dbNSFP' of VEP went wrong
annotate software error vep dbnsfp written 9 months ago by ZoeChing • 0
4
votes
2
answers
916
views
2
answers
Multiple VCF files and VEP
software error ensembl sequence vep snp written 2.1 years ago by dav • 0 • updated 10 months ago by Biostar ♦♦ 20
4
votes
1
answer
377
views
1
answer
Question about the consequence types from VEP
snps annotation consequence types vep written 11 months ago by vasilislenis • 70 • updated 11 months ago by Denise - Open Targets • 3.9k
0
votes
1
answer
313
views
1
answer
Protein Sequence identifier to use after annotating variants (Swissprot or Uniparc) ?
ensembl vep uniprot written 11 months ago by aditi.qamra • 210 • updated 11 months ago by Elisabeth Gasteiger • 1.1k
2
votes
1
answer
442
views
1
answer
VEP vs webserver Polyphen scores
polyphen annotation vep missense written 12 months ago by regrant • 10 • updated 12 months ago by Emily_Ensembl ♦ 11k
0
votes
0
answers
405
views
0
answers
Ensembl VEP cannot parse HGVS notation.
hgvs ensemble vep ref_seq parsing written 13 months ago by gmora • 0 • updated 13 months ago by Biostar ♦♦ 20
1
vote
0
answers
438
views
0
answers
Help needed understanding VEP: Allele - the variant allele used to calculate the consequence
next-gen vep snp written 14 months ago by velan • 0
3
votes
1
answer
358
views
1
answer
--maf_exac flag not found in VEP77
vep exac variant effect predictor written 15 months ago by arronslacey • 210 • updated 15 months ago by Emily_Ensembl ♦ 11k
6
votes
3
answers
555
views
3
answers
Protein coding transcripts with vep
annotation vep variants written 15 months ago by onemoreuser • 0 • updated 15 months ago by Emily_Ensembl ♦ 11k
7
votes
2
answers
801
views
2
answers
Wrong predict consequence in variants using VEP Ensembl
software error ensembl vep snp written 16 months ago by theodorobiotec • 10 • updated 16 months ago by Christian • 2.5k
0
votes
0
answers
668
views
0
answers
VEP Variant Effect Predictor issue with RefSeq and Gene symbol
vep refseq written 21 months ago by manon.sourdeix • 0 • updated 19 months ago by Biostar ♦♦ 20
4
votes
1
answer
702
views
1
answer
Can I run VEP on a VCF twice?
vcf vep written 20 months ago by karl.stamm ♦ 3.1k • updated 20 months ago by bruce.moran • 210
8
votes
3
answers
2.3k
views
3
answers
Variant Effect Predictor plugin for ExAC frequencies
vep variant exac annotation written 2.3 years ago by Sean Davis ♦ 23k
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