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ensemblvep
•
reset
2
votes
3
replies
406
views
How to use a specific Bioconductor version in custom Dockerfile
singularity
ensemblVEP
docker
3 months ago
jtaylor-predicine
• 0
0
votes
1
reply
462
views
Ensembl REST API Endpoints
ensemblVEP
EnsDb.Hsapiens.v79
updated 14 months ago by
Kevin Blighe
3.8k • written 14 months ago by
anasjamshed1994
• 0
0
votes
2
replies
837
views
News:
Ensembl 103 has been released
biomaRt
ensembldb
Ensembl
ensemblVEP
Biomart
2.1 years ago • updated 23 months ago
mchakiachvili
▴ 20
0
votes
2
replies
658
views
questions when installing 'Ensembl VEP' and R package 'ensemblVEP'
R
ensemblVEP
gene annotation
Variant Effect Predictor
Ensembl VEP
3.7 years ago
ycchang
• 0
2
votes
3
replies
924
views
Error in VCF parsing with VariantAnnotation
software error
VariantAnnotation
ensemblVEP
updated 4.0 years ago by
Valerie Obenchain
★ 6.7k • written 4.0 years ago by
mumichae
▴ 20
2
votes
5
replies
1.5k
views
ensemblVEP: "Ensembl VEP is not installed in your path."
software error
ensemblVEP
updated 4.0 years ago by
Martin Morgan
25k • written 4.0 years ago by
patrick.turko
▴ 10
0
votes
4
replies
788
views
ensemblVEP supported versions, and troubleshooting
ensemblVEP
updated 5.0 years ago by
shepherl
3.4k • written 5.0 years ago by
Janet Young
▴ 740
0
votes
0
replies
875
views
error using ensemblVEP v88 when querying rs67418256 with basic(param_vep)$everything=TRUE
ensemblvep
5.8 years ago
mlrubio
• 0
0
votes
0
replies
1.4k
views
problem using ensemblVEP with GRC37
ensemblvep
grch37
5.9 years ago
mikko.arvas
• 0
0
votes
1
reply
666
views
ensemblVEP problem with MySQL database
ensemblvep
6.6 years ago
clairelsimpson
▴ 10
2
votes
4
replies
1.0k
views
parseCSQToGRanges() : mcols are all factors, despite some numeric fields
ensemblVEP
updated 6.9 years ago by
Martin Morgan
25k • written 6.9 years ago by
kevin.rue
▴ 320
2
votes
3
replies
1.8k
views
ensemblVEP support for Ensembl API version 78
ensemblvep
updated 8.3 years ago by
Valerie Obenchain
★ 6.7k • written 8.3 years ago by
Moiz Bootwalla
▴ 50
0
votes
2
replies
1.8k
views
ensemblVEP, variant_effect_predictor versions and release schedule
Transcription
HapMap
PolyPhen
SIFT
convert
genomes
ensemblVEP
Transcription
HapMap
SIFT
updated 9.2 years ago by
Valerie Obenchain
★ 6.7k • written 9.2 years ago by
Thomas Sandmann
▴ 30
0
votes
0
replies
939
views
ensemblVEP, variant_effect_predictor versions and release schedule
Cancer
MLInterfaces
bridge
ensemblVEP
AnnotationHub
Cancer
MLInterfaces
bridge
ensemblVEP
9.2 years ago
Valerie Obenchain
★ 6.7k
0
votes
0
replies
963
views
zero-row result breaks select() on PolyPhen.Hsapiens.* and SIFT.Hsapiens.*
VariantAnnotation
Annotation
PolyPhen
SIFT
annotate
VariantAnnotation
ensemblVEP
Annotation
9.3 years ago
Valerie Obenchain
★ 6.7k
0
votes
5
replies
1.0k
views
ensemblVEP, variant_effect_predictor versions and release schedule
ensemblVEP
ensemblVEP
updated 9.5 years ago by
Valerie Obenchain
★ 6.7k • written 9.5 years ago by
Guest User
★ 12k
0
votes
5
replies
1.6k
views
ensemblVEP: passing on coverage / frequency information
Coverage
VariantTools
ensemblVEP
Coverage
VariantTools
ensemblVEP
updated 10.0 years ago by
Valerie Obenchain
★ 6.7k • written 10.0 years ago by
Guest User
★ 12k
17 results • Page
1 of 1
Recent ...
Replies
Comment: Time-course, comparison of two groups
by
boczniak767
▴ 720
As an exercise I've tried to analyze simpler but similar experiment. The data is from real experiment (E-MTAB-11224) comparing wild type an…
Answer: How to getting synonymous SNPs from BiomaRt before timing out?
by
James W. MacDonald
62k
Asking for multiple things at once will tend to blow out your results, as you will get every possible combination. ``` > options(timeou…
Comment: Definition of disease_subtype abbreviations
by
Lucas Schiffer
▴ 240
Hi Sehyun, I do not know myself and can only find one reference in the [template.csv](https://github.com/waldronlab/curatedMetagenomicDataC…
Answer: Are polynomial contrasts for a time factor possible in DESeq2?
by
ATpoint
★ 2.3k
As you can use a model.matrix() as input for the design you can use a great variety of models. A great read is this work from Ritchie/Smyth…
Comment: does anyone how to create rarefaction curves from a phyloseq object?
by
RMiller
• 0
I am not sure what you have tried, but the "vegan" library (package) has the ability to do rarefaction. So make sure to load `library("veg…
Votes
Are polynomial contrasts for a time factor possible in DESeq2?
Answer: How to deal with the negative values from EBPlusPlusAdjustPANCAN_IlluminaHiSeq_R
Comment: TxDB.Hsapiens.UCSC.hg38.knownGene with locateVariants() identifying SNPs from va
A: Pathway analysis of differentially methylated CpGs
Comment: TxDB.Hsapiens.UCSC.hg38.knownGene with locateVariants() identifying SNPs from va
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Aki Hoji
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shepherl
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