Showing : ensemblvep • reset
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RFC: significant changes to ensemblVEP package
VariantAnnotation ensemblVEP
11 months ago Vincent J. Carey, Jr. 6.7k
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1
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555
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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
2.0 years ago jtaylor-predicine • 0
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1
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954
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
3.8 years ago • updated 3.6 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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1.7k
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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 10.9 years ago by ★ 6.8k • written 11.0 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
11.0 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
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Replies
Comment: Feature Counts - potential bug with outfile.jcounts by chris2.a.white • 0
Hi @gordonsmyth and @weishi, Firstly, thank you for offering your time to develop the junction quantification module further. This is gre…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0
Hi Tim, Thanks for your reply! Yes, my data is 450K, and it is TCGA methylation data downloaded by TCGAbiolinks. The problem is that I can …
Answer: Error in get_anno_data(ontology) : ontology not supported yet... by Guido Hooiveld ★ 4.1k
Did you check the help page for the function `enrichDO`? Type `?enrichDO`. I am asking, because there it is stated that the argument `ont`…
Comment: Build error on kunpeng2 Linux aarch64 by martin.grigorov ▴ 10
Hi, There was a problem with `icu` and because of that the (r)curl library was not installed. The system/OS curl library is one version ol…
Answer: Standardization of rlog transformed counts before PCA by ATpoint ★ 4.6k
I guess you mean scaling in terms of Z-scoring? There are plenty of posts towards scaling in PCA both here on Bioconductor and in other com…
Votes
Comment: Feature Counts - potential bug with outfile.jcounts
Answer: Feature Counts - potential bug with outfile.jcounts
Comment: Can we get beta values with DMRcate package
Answer: Can we get beta values with DMRcate package
DiffBind giving different results from dba.report() and dba.analyze(..., bRetrieveAnalysis=TRUE)
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