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ensemblVEP
•
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0
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replies
161
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RFC: significant changes to ensemblVEP package
VariantAnnotation
ensemblVEP
3 months ago
Vincent J. Carey, Jr.
6.7k
0
votes
1
reply
415
views
Differential express genes in one group across all time points
DESeq2
edgeR
BP4RNAseq
ensemblVEP
updated 12 months ago by
Michael Love
41k • written 12 months ago by
DHARMESH
• 0
2
votes
3
replies
1.5k
views
How to use a specific Bioconductor version in custom Dockerfile
singularity
ensemblVEP
docker
17 months ago • updated 16 months ago
jtaylor-predicine
• 0
0
votes
1
reply
785
views
Ensembl REST API Endpoints
ensemblVEP
EnsDb.Hsapiens.v79
updated 2.3 years ago by
Kevin Blighe
★ 3.9k • written 2.3 years ago by
anasjamshed1994
• 0
0
votes
2
replies
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
2
replies
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
2
votes
3
replies
1.4k
views
Error in VCF parsing with VariantAnnotation
software error
VariantAnnotation
ensemblVEP
updated 5.1 years ago by
Valerie Obenchain
★ 6.8k • written 5.1 years ago by
mumichae
▴ 20
2
votes
5
replies
2.2k
views
ensemblVEP: "Ensembl VEP is not installed in your path."
software error
ensemblVEP
updated 5.2 years ago by
Martin Morgan
25k • written 5.2 years ago by
patrick.turko
▴ 10
0
votes
4
replies
1.2k
views
ensemblVEP supported versions, and troubleshooting
ensemblVEP
updated 6.1 years ago by
shepherl
3.8k • written 6.1 years ago by
Janet Young
▴ 740
0
votes
0
replies
1.1k
views
error using ensemblVEP v88 when querying rs67418256 with basic(param_vep)$everything=TRUE
ensemblvep
7.0 years ago
mlrubio
• 0
0
votes
0
replies
1.7k
views
problem using ensemblVEP with GRC37
ensemblvep
grch37
7.0 years ago
mikko.arvas
• 0
0
votes
1
reply
881
views
ensemblVEP problem with MySQL database
ensemblvep
7.7 years ago
clairelsimpson
▴ 10
2
votes
4
replies
1.4k
views
parseCSQToGRanges() : mcols are all factors, despite some numeric fields
ensemblVEP
updated 8.0 years ago by
Martin Morgan
25k • written 8.0 years ago by
kevin.rue
▴ 350
2
votes
3
replies
2.1k
views
ensemblVEP support for Ensembl API version 78
ensemblvep
updated 9.4 years ago by
Valerie Obenchain
★ 6.8k • written 9.4 years ago by
Moiz Bootwalla
▴ 50
0
votes
2
replies
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
Valerie Obenchain
★ 6.8k • written 10.3 years ago by
Thomas Sandmann
▴ 30
0
votes
0
replies
1.1k
views
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
0
replies
1.2k
views
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
0
votes
5
replies
1.3k
views
ensemblVEP, variant_effect_predictor versions and release schedule
ensemblVEP
ensemblVEP
updated 10.6 years ago by
Valerie Obenchain
★ 6.8k • written 10.6 years ago by
Guest User
★ 13k
0
votes
5
replies
2.0k
views
ensemblVEP: passing on coverage / frequency information
Coverage
VariantTools
ensemblVEP
Coverage
VariantTools
ensemblVEP
updated 11.1 years ago by
Valerie Obenchain
★ 6.8k • written 11.1 years ago by
Guest User
★ 13k
19 results • Page
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Answer: SGSeq: moving toward diffex from SGSeq analysis
by
Leonard Goldstein
▴ 200
`vid` and `eid` are unique identifiers for splice variants and splicing events respectively. They are analogous to exon bin and gene identi…
Comment: Help with error using camera() in limma
by
Chris
• 0
Thanks James! I fixed the error. I try gene symbol instead of entrez and it worked.
Comment: limma for gene expression analysis with big and unbalanced sample size
by
XW
• 0
Could you explain more about the comment "there are no problems with using limma for unbalanced data sets" ? thanks.
Comment: Limma, eBayes different sample size of groups and adjustment
by
XW
• 0
Could you explain more about how the analysis self-correct the different sample sizes when calling DEGs in limma? Thanks
Answer: How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
by
James W. MacDonald
65k
The section of the vignette that is *directly above the one you quote* says that you can use the HMMcopy utils to do all three things. And …
Votes
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
C: Extremely big genes in annotation TxDb packages
Make custom Txdb class objects from Txdb
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