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locateVariants
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4
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8
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2.0k
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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
20 months ago
davidhillis
• 0
0
votes
1
reply
765
views
Information about locateVariants function
genomiclocation
canonicaltranscripts
locateVariants
updated 3.2 years ago by
James W. MacDonald
67k • written 3.2 years ago by
Paola
• 0
2
votes
2
replies
1.6k
views
[VariantAnnotation] Preserve query metadata with locateVariants()
variantannotation
locatevariants
metadata
mcols
updated 6.9 years ago by
Valerie Obenchain
★ 6.8k • written 6.9 years ago by
enricoferrero
▴ 660
0
votes
1
reply
1.3k
views
predictCoding errors with: sequence ^1$ not found
variantannotation
predict coding
locateVariants
granges
7.1 years ago
tony j
• 0
0
votes
2
replies
1.8k
views
locateVariants function does not find an annotation for the locus
locatevariants
txdb.hsapiens.ucsc.hg19.knowngene
variantannotation
7.3 years ago
Aleksandra
• 0
0
votes
2
replies
1.6k
views
SNPs in multiple locations
txdb.hsapiens.ucsc.hg19.knowngene
ucsc
annotation
locatevariants
variantannotation
updated 7.4 years ago by
Valerie Obenchain
★ 6.8k • written 7.4 years ago by
Lna
• 0
1
vote
23
replies
2.8k
views
Distance calculation for variants in intergenic regions
locatevariants
variantannotation
genomicfeatures
updated 8.0 years ago by
Michael Lawrence
★ 11k • written 8.0 years ago by
Lna
• 0
1
vote
4
replies
2.4k
views
variantAnnotation::locateVariants() with AllVariants(): why do some input variants not get annotated?
variantannotation
locatevariants
9.2 years ago
Jakob Goldmann
• 0
8 results • Page
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Answer: ANOVA like approach of edgeR
by
Gordon Smyth
51k
You need to clarify whether interactions are present for the two factors in your study. In the two factors do not interact, then the code y…
Answer: Create Illmina bead summary data
by
Gordon Smyth
51k
GenomeStudio produces IDAT files that you can read using the `read.idat` function in limma. That is the recommended way to read GenomeStudi…
Comment: Help with RSEM counts: do I transpose matrix?
by
NB
• 0
OK thank you.
Comment: Help with RSEM counts: do I transpose matrix?
by
James W. MacDonald
67k
You can ask here, but please read the `DESeq2` vignette first, which should answer most questions.
Comment: Help with RSEM counts: do I transpose matrix?
by
NB
• 0
Thank you. If I have questions about QC/normalization, do I ask them here or ask a new question?
Votes
Answer: ANOVA like approach of edgeR
Answer: ANOVA like approach of edgeR
Comment: ANOVA like approach of edgeR
Answer: Detecting genomic signatures of drug resistance breast cancer in transcriptom
Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac (
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