Showing : ensemblVEP • reset
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RFC: significant changes to ensemblVEP package
VariantAnnotation ensemblVEP
24 months ago Vincent J. Carey, Jr. 6.7k
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1
reply
787
views
Differential express genes in one group across all time points
DESeq2 edgeR BP4RNAseq ensemblVEP
updated 2.7 years ago by 43k • written 2.7 years ago by • 0
2
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3
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3.0k
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How to use a specific Bioconductor version in custom Dockerfile
singularity ensemblVEP docker
3.1 years ago jtaylor-predicine • 0
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1
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1.5k
views
Ensembl REST API Endpoints
ensemblVEP EnsDb.Hsapiens.v79
updated 4.0 years ago by ★ 4.0k • written 4.0 years ago by • 0
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2
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2.0k
views
News: Ensembl 103 has been released
biomaRt ensembldb Ensembl ensemblVEP Biomart
4.9 years ago • updated 4.7 years ago mchakiachvili ▴ 20
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2
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1.8k
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questions when installing 'Ensembl VEP' and R package 'ensemblVEP'
R ensemblVEP gene annotation Variant Effect Predictor Ensembl VEP
6.5 years ago ycchang • 0
2
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3
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2.2k
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Error in VCF parsing with VariantAnnotation
software error VariantAnnotation ensemblVEP
updated 6.8 years ago by ★ 6.8k • written 6.8 years ago by ▴ 20
2
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5
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3.2k
views
ensemblVEP: "Ensembl VEP is not installed in your path."
software error ensemblVEP
updated 6.8 years ago by 25k • written 6.8 years ago by ▴ 10
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4
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2.0k
views
ensemblVEP supported versions, and troubleshooting
ensemblVEP
updated 7.8 years ago by 4.2k • written 7.8 years ago by ▴ 740
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1.4k
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error using ensemblVEP v88 when querying rs67418256 with basic(param_vep)$everything=TRUE
ensemblvep
8.7 years ago mlrubio • 0
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2.2k
views
problem using ensemblVEP with GRC37
ensemblvep grch37
8.7 years ago mikko.arvas • 0
0
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1
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1.3k
views
ensemblVEP problem with MySQL database
ensemblvep
9.4 years ago clairelsimpson ▴ 10
2
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4
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1.9k
views
parseCSQToGRanges() : mcols are all factors, despite some numeric fields
ensemblVEP
updated 9.7 years ago by 25k • written 9.7 years ago by ▴ 350
2
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3
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2.6k
views
ensemblVEP support for Ensembl API version 78
ensemblvep
updated 11.1 years ago by ★ 6.8k • written 11.1 years ago by ▴ 50
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2
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2.9k
views
ensemblVEP, variant_effect_predictor versions and release schedule
Transcription HapMap PolyPhen SIFT convert genomes ensemblVEP Transcription HapMap SIFT
updated 12.0 years ago by ★ 6.8k • written 12.0 years ago by ▴ 30
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0
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1.5k
views
ensemblVEP, variant_effect_predictor versions and release schedule
Cancer MLInterfaces bridge ensemblVEP AnnotationHub Cancer MLInterfaces bridge ensemblVEP
12.0 years ago Valerie Obenchain ★ 6.8k
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1.6k
views
zero-row result breaks select() on PolyPhen.Hsapiens.* and SIFT.Hsapiens.*
VariantAnnotation Annotation PolyPhen SIFT annotate VariantAnnotation ensemblVEP Annotation
12.1 years ago Valerie Obenchain ★ 6.8k
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5
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1.7k
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ensemblVEP, variant_effect_predictor versions and release schedule
ensemblVEP ensemblVEP
updated 12.3 years ago by ★ 6.8k • written 12.3 years ago by ★ 13k
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5
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2.7k
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ensemblVEP: passing on coverage / frequency information
Coverage VariantTools ensemblVEP Coverage VariantTools ensemblVEP
updated 12.8 years ago by ★ 6.8k • written 12.8 years ago by ★ 13k
19 results • Page 1 of 1
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Comment: Ensembl plants at annotationHub? by jwp48 • 0
Nope I don't mind haha! Anyway thanks so much! Thats super kind of you!
Answer: Combining two proteomics datasets with limpa by Gordon Smyth 53k
Hi Andrew, We don't have that much experience combining different datasets with limpa yet, but my feeling is that the same DPC should be u…
Comment: Guitar R package requires update due to dependency GenomicFeatures by ferran.llobet.cabau ▴ 10
Thank you @seandavi for your feedback. I followed your recommendations and generated a [pull request][1] including the fix for this issue…
Comment: Ensembl plants at annotationHub? by Guido Hooiveld ★ 4.1k
Hope you don't mind I am not Johannes... ;-) Note that you nowadays can generate these yourselves using the `docker` image Johannes made av…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0
Thanks for the reminder about DiffVar (for that project I ended up using GAMLSS in the end and haven't touched DiffVar since) and the alter…
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A: What is logFC and "B" in methylation analysis ??
limma moderated t-statistics and B-statistics
Comment: Guitar R package requires update due to dependency GenomicFeatures
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A: how to control age and gender effect in expression data using DESeq2
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