Showing : ensemblvep • reset
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RFC: significant changes to ensemblVEP package
VariantAnnotation ensemblVEP
13 months ago Vincent J. Carey, Jr. 6.7k
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1
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576
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Differential express genes in one group across all time points
DESeq2 edgeR BP4RNAseq ensemblVEP
updated 22 months ago by 43k • written 22 months ago by • 0
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3
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2.2k
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How to use a specific Bioconductor version in custom Dockerfile
singularity ensemblVEP docker
2.2 years ago jtaylor-predicine • 0
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1
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978
views
Ensembl REST API Endpoints
ensemblVEP EnsDb.Hsapiens.v79
updated 3.1 years ago by ★ 4.0k • written 3.1 years ago by • 0
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2
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1.7k
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News: Ensembl 103 has been released
biomaRt ensembldb Ensembl ensemblVEP Biomart
4.0 years ago • updated 3.8 years ago mchakiachvili ▴ 20
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1.4k
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questions when installing 'Ensembl VEP' and R package 'ensemblVEP'
R ensemblVEP gene annotation Variant Effect Predictor Ensembl VEP
5.6 years ago ycchang • 0
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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 5.9 years ago by ★ 6.8k • written 5.9 years ago by ▴ 20
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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 5.9 years ago by 25k • written 5.9 years ago by ▴ 10
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4
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1.6k
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ensemblVEP supported versions, and troubleshooting
ensemblVEP
updated 6.9 years ago by 4.1k • written 6.9 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
7.7 years ago mlrubio • 0
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1.9k
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problem using ensemblVEP with GRC37
ensemblvep grch37
7.8 years ago mikko.arvas • 0
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1.1k
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ensemblVEP problem with MySQL database
ensemblvep
8.5 years ago clairelsimpson ▴ 10
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4
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1.6k
views
parseCSQToGRanges() : mcols are all factors, despite some numeric fields
ensemblVEP
updated 8.8 years ago by 25k • written 8.8 years ago by ▴ 350
2
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3
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2.3k
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ensemblVEP support for Ensembl API version 78
ensemblvep
updated 10.1 years ago by ★ 6.8k • written 10.1 years ago by ▴ 50
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2
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2.4k
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ensemblVEP, variant_effect_predictor versions and release schedule
Transcription HapMap PolyPhen SIFT convert genomes ensemblVEP Transcription HapMap SIFT
updated 11.1 years ago by ★ 6.8k • written 11.1 years ago by ▴ 30
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1.3k
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ensemblVEP, variant_effect_predictor versions and release schedule
Cancer MLInterfaces bridge ensemblVEP AnnotationHub Cancer MLInterfaces bridge ensemblVEP
11.1 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
11.2 years ago Valerie Obenchain ★ 6.8k
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5
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1.5k
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ensemblVEP, variant_effect_predictor versions and release schedule
ensemblVEP ensemblVEP
updated 11.4 years ago by ★ 6.8k • written 11.4 years ago by ★ 13k
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5
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2.3k
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ensemblVEP: passing on coverage / frequency information
Coverage VariantTools ensemblVEP Coverage VariantTools ensemblVEP
updated 11.8 years ago by ★ 6.8k • written 11.8 years ago by ★ 13k
19 results • Page 1 of 1
Recent ...
Replies
Comment: accounting for vs. removing batch effects with DESeq2 in RNAseq analysis by Blair • 0
@[Sprunki][1] wrote: Please read the vignette and think about adhering to the author's best practice, which discusses batch impacts. [1…
Comment: error in ChAMP loading file by 81becky • 0
hi Giulia, it sounds like you're facing a frustating issue with your chAMP import. One common suggestion is to double-check your CSV fomat…
Answer: DESeq2 adujsted p-value cutoff seemingly not working by James W. MacDonald 68k
From `?results' ``` On p-values: By default, independent filtering is performed to select a set of genes for multiple tes…
Comment: Issue with assigning transcript IDs to reads when using summarizeOverlaps(mode = by SofieK • 0
Thank you, I will try this and see.
Comment: DiffBind - question on the use of filtered or unfiltered input data by deltaexploitss • 0
Data input is the adding of data into a computer. This can take place through an input device such as a keyboard. A user inputs data, which…
Votes
A: Effect of lfcThreshold on p-value in DESeq2
Answer: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
What benchmark should I use for setting the EdgeR filterByExpr min.count parameter?
Answer: Issue with assigning transcript IDs to reads when using summarizeOverlaps(mode =
Comment: Unused arguments error without used arguments in GSVA?
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