Showing : ensemblvep • reset
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RFC: significant changes to ensemblVEP package
VariantAnnotation ensemblVEP
11 months ago Vincent J. Carey, Jr. 6.7k
0
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1
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559
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Differential express genes in one group across all time points
DESeq2 edgeR BP4RNAseq ensemblVEP
updated 20 months ago by 43k • written 20 months ago by • 0
2
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3
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2.1k
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How to use a specific Bioconductor version in custom Dockerfile
singularity ensemblVEP docker
2.1 years ago jtaylor-predicine • 0
0
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1
reply
959
views
Ensembl REST API Endpoints
ensemblVEP EnsDb.Hsapiens.v79
updated 3.0 years ago by ★ 4.0k • written 3.0 years ago by • 0
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2
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1.6k
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News: Ensembl 103 has been released
biomaRt ensembldb Ensembl ensemblVEP Biomart
3.9 years ago • updated 3.7 years ago mchakiachvili ▴ 20
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2
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1.3k
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questions when installing 'Ensembl VEP' and R package 'ensemblVEP'
R ensemblVEP gene annotation Variant Effect Predictor Ensembl VEP
5.4 years ago ycchang • 0
2
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3
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1.8k
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Error in VCF parsing with VariantAnnotation
software error VariantAnnotation ensemblVEP
updated 5.8 years ago by ★ 6.8k • written 5.8 years ago by ▴ 20
2
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5
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2.6k
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ensemblVEP: "Ensembl VEP is not installed in your path."
software error ensemblVEP
updated 5.8 years ago by 25k • written 5.8 years ago by ▴ 10
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4
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1.5k
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ensemblVEP supported versions, and troubleshooting
ensemblVEP
updated 6.8 years ago by 4.1k • written 6.8 years ago by ▴ 740
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1.2k
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error using ensemblVEP v88 when querying rs67418256 with basic(param_vep)$everything=TRUE
ensemblvep
7.6 years ago mlrubio • 0
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1.8k
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problem using ensemblVEP with GRC37
ensemblvep grch37
7.6 years ago mikko.arvas • 0
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1
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1.0k
views
ensemblVEP problem with MySQL database
ensemblvep
8.4 years ago clairelsimpson ▴ 10
2
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4
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1.6k
views
parseCSQToGRanges() : mcols are all factors, despite some numeric fields
ensemblVEP
updated 8.6 years ago by 25k • written 8.6 years ago by ▴ 350
2
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3
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2.2k
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ensemblVEP support for Ensembl API version 78
ensemblvep
updated 10.0 years ago by ★ 6.8k • written 10.0 years ago by ▴ 50
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2
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2.4k
views
ensemblVEP, variant_effect_predictor versions and release schedule
Transcription HapMap PolyPhen SIFT convert genomes ensemblVEP Transcription HapMap SIFT
updated 11.0 years ago by ★ 6.8k • written 11.0 years ago by ▴ 30
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0
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1.3k
views
ensemblVEP, variant_effect_predictor versions and release schedule
Cancer MLInterfaces bridge ensemblVEP AnnotationHub Cancer MLInterfaces bridge ensemblVEP
11.0 years ago Valerie Obenchain ★ 6.8k
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1.4k
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zero-row result breaks select() on PolyPhen.Hsapiens.* and SIFT.Hsapiens.*
VariantAnnotation Annotation PolyPhen SIFT annotate VariantAnnotation ensemblVEP Annotation
11.1 years ago Valerie Obenchain ★ 6.8k
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5
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1.4k
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ensemblVEP, variant_effect_predictor versions and release schedule
ensemblVEP ensemblVEP
updated 11.2 years ago by ★ 6.8k • written 11.2 years ago by ★ 13k
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5
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2.2k
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ensemblVEP: passing on coverage / frequency information
Coverage VariantTools ensemblVEP Coverage VariantTools ensemblVEP
updated 11.7 years ago by ★ 6.8k • written 11.7 years ago by ★ 13k
19 results • Page 1 of 1
Recent ...
Replies
Comment: ChAMP.DMR error - Error in makeGenomicRatioSetFromMatrix by O'Brien • 0
Consult the ChAMP.DMR documentation for more information on supported array types and expected data formats: https://bioconductor.org/packa…
Answer: combining raw counts and estimated counts by O'Brien • 0
It is possible to combine raw counts from TCGA and estimated counts from GEO datasets (Kalisto pseudoalignment) while mitigating batch effe…
Comment: Packages don't update, but no error or warning is thrown by neighsanlo • 0
This is useful information.
Comment: Perform gene set enrichment analysis using fgsea on two conditions that don't ha by freemanmclaughlin9969289 • 0
Tools such as Pathway Analysis with Deweighting of Overlapping Genes ([block blast][1]) or Gene Set Enrichment Analysis for Single Cell RNA…
Comment: How to get around the warning message: mzR has been built against a different Rc by Nan • 0
Hello, I was wondering if you were able to resolve this issue? I've recently encountered a similar problem and would like to ask for your a…
Votes
A: RNA-seq Normalisation - normalise all samples in experiment or only the ones use
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
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