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locateVariants
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4
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8
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1.4k
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TxDB.Hsapiens.UCSC.hg38.knownGene with locateVariants() identifying SNPs from various chromosome being part of the same gene
MetID
TxDB.Hsapiens.UCSC.hg38.knownGene
locateVariants
GenomicFeatures
VariantAnnotation
13 months ago
davidhillis
• 0
0
votes
1
reply
634
views
Information about locateVariants function
genomiclocation
canonicaltranscripts
locateVariants
updated 2.6 years ago by
James W. MacDonald
65k • written 2.6 years ago by
Paola
• 0
2
votes
2
replies
1.4k
views
[VariantAnnotation] Preserve query metadata with locateVariants()
variantannotation
locatevariants
metadata
mcols
updated 6.3 years ago by
Valerie Obenchain
★ 6.8k • written 6.3 years ago by
enricoferrero
▴ 660
0
votes
1
reply
1.2k
views
predictCoding errors with: sequence ^1$ not found
variantannotation
predict coding
locateVariants
granges
6.5 years ago
tony j
• 0
0
votes
2
replies
1.5k
views
locateVariants function does not find an annotation for the locus
locatevariants
txdb.hsapiens.ucsc.hg19.knowngene
variantannotation
6.7 years ago
Aleksandra
• 0
0
votes
2
replies
1.3k
views
SNPs in multiple locations
txdb.hsapiens.ucsc.hg19.knowngene
ucsc
annotation
locatevariants
variantannotation
updated 6.8 years ago by
Valerie Obenchain
★ 6.8k • written 6.8 years ago by
Lna
• 0
1
vote
23
replies
2.4k
views
Distance calculation for variants in intergenic regions
locatevariants
variantannotation
genomicfeatures
updated 7.4 years ago by
Michael Lawrence
★ 11k • written 7.4 years ago by
Lna
• 0
1
vote
4
replies
2.2k
views
variantAnnotation::locateVariants() with AllVariants(): why do some input variants not get annotated?
variantannotation
locatevariants
8.6 years ago
Jakob Goldmann
• 0
8 results • Page
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Answer: OrgDb for maize
by
Guido Hooiveld
★ 3.9k
I notice the data you are working with is based on `ensembl` ids. This is important, because the `OrgDb` are annotation databases that are …
Comment: Theoretical WGCNA Question
by
Garrett
• 0
Thanks Peter!
Comment: FGSEA pre-ranked input in increasing order or decreasing
by
sropri
• 0
Thank you!
Comment: FGSEA pre-ranked input in increasing order or decreasing
by
alserg
▴ 240
They are reorder in the decreasing order.
Comment: significant difference of p-values with dream() after updating VariancePartition
by
Le
• 0
Thanks for your reply @gabrielhoffman ! I've been trying to isolate the changes, and v1.32.5 had the same results as v1.33.1 while v1.30.0…
Votes
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
Comment: DEXSeq DEXSeqDataSet count matrix duplication
Comment: Error in champ.load(): The following specified files do not exist
Answer: Error in read.metharray(basenames = files, extended = extended, verbose = verbos
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