Showing : ensemblvep • reset
0
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4
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1.2k
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ensemblVEP supported versions, and troubleshooting
ensemblVEP
updated 6.1 years ago by 3.8k • written 6.1 years ago by ▴ 740
2
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5
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2.2k
views
ensemblVEP: "Ensembl VEP is not installed in your path."
software error ensemblVEP
updated 5.1 years ago by 25k • written 5.1 years ago by ▴ 10
2
votes
3
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1.4k
views
Error in VCF parsing with VariantAnnotation
software error VariantAnnotation ensemblVEP
updated 5.1 years ago by ★ 6.8k • written 5.1 years ago by ▴ 20
2
votes
4
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1.4k
views
parseCSQToGRanges() : mcols are all factors, despite some numeric fields
ensemblVEP
updated 8.0 years ago by 25k • written 8.0 years ago by ▴ 350
0
votes
5
replies
1.3k
views
ensemblVEP, variant_effect_predictor versions and release schedule
ensemblVEP ensemblVEP
updated 10.6 years ago by ★ 6.8k • written 10.6 years ago by ★ 13k
2
votes
3
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1.5k
views
How to use a specific Bioconductor version in custom Dockerfile
singularity ensemblVEP docker
16 months ago jtaylor-predicine • 0
0
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1
reply
409
views
Differential express genes in one group across all time points
DESeq2 edgeR BP4RNAseq ensemblVEP
updated 12 months ago by 41k • written 12 months ago by • 0
0
votes
2
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2.2k
views
ensemblVEP, variant_effect_predictor versions and release schedule
Transcription HapMap PolyPhen SIFT convert genomes ensemblVEP Transcription HapMap SIFT
updated 10.3 years ago by ★ 6.8k • written 10.3 years ago by ▴ 30
0
votes
5
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2.0k
views
ensemblVEP: passing on coverage / frequency information
Coverage VariantTools ensemblVEP Coverage VariantTools ensemblVEP
updated 11.0 years ago by ★ 6.8k • written 11.0 years ago by ★ 13k
2
votes
3
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2.0k
views
ensemblVEP support for Ensembl API version 78
ensemblvep
updated 9.3 years ago by ★ 6.8k • written 9.4 years ago by ▴ 50
0
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0
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154
views
RFC: significant changes to ensemblVEP package
VariantAnnotation ensemblVEP
3 months ago Vincent J. Carey, Jr. 6.7k
0
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1.2k
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zero-row result breaks select() on PolyPhen.Hsapiens.* and SIFT.Hsapiens.*
VariantAnnotation Annotation PolyPhen SIFT annotate VariantAnnotation ensemblVEP Annotation
10.4 years ago Valerie Obenchain ★ 6.8k
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1.1k
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ensemblVEP, variant_effect_predictor versions and release schedule
Cancer MLInterfaces bridge ensemblVEP AnnotationHub Cancer MLInterfaces bridge ensemblVEP
10.3 years ago Valerie Obenchain ★ 6.8k
0
votes
1
reply
875
views
ensemblVEP problem with MySQL database
ensemblvep
7.7 years ago clairelsimpson ▴ 10
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0
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1.7k
views
problem using ensemblVEP with GRC37
ensemblvep grch37
7.0 years ago mikko.arvas • 0
0
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0
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1.1k
views
error using ensemblVEP v88 when querying rs67418256 with basic(param_vep)$everything=TRUE
ensemblvep
6.9 years ago mlrubio • 0
0
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2
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1.1k
views
questions when installing 'Ensembl VEP' and R package 'ensemblVEP'
R ensemblVEP gene annotation Variant Effect Predictor Ensembl VEP
4.8 years ago ycchang • 0
0
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2
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1.3k
views
News: Ensembl 103 has been released
biomaRt ensembldb Ensembl ensemblVEP Biomart
3.2 years ago • updated 3.0 years ago mchakiachvili ▴ 20
0
votes
1
reply
778
views
Ensembl REST API Endpoints
ensemblVEP EnsDb.Hsapiens.v79
updated 2.3 years ago by ★ 3.9k • written 2.3 years ago by • 0
19 results • Page 1 of 1
Recent ...
Replies
Comment: Different Shrunk Log2FC according with reference by Michael Love 41k
I took a look and the posterior width for these (fairly rare) examples overlaps zero. So the posterior when it disagrees is not narrow. An…
Comment: How to tell and visualize up/down regulation of pathways from clusterprofiler gs by Guangchuang Yu ★ 1.2k
an example is also presented in <https://pubmed.ncbi.nlm.nih.gov/34557778/>.
Comment: Trying to use enrichGO by Guido Hooiveld ★ 3.9k
Nothing would prevent you from using the `enrichGO` function (or any other function for over-representation analysis [ORA]) with only 14 ge…
Comment: Different Shrunk Log2FC according with reference by andrebolerbarros ▴ 20
Thanks @atpoint for your answer! The issue with that is then it severely hinders the possiblity of using `apeglm` shrinking approach, sinc…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge by ATpoint ★ 4.0k
The error that is relevant is `Aborted (core dumped)`. This line 2890 refers to the C source code that throws the error, it is not relevant…
Votes
Reproducibility issue with scran together with lapply and BiocParallel
C: SGSeq: moving toward diffex from SGSeq analysis
DEXSeq-Error in FUN(X[[i]], ...) : subscript out of bounds
Subset DEXSeqDataSet In DEXSeq
How to get all possible comparisons in DiffBind
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