Showing : TxDb.Hsapiens.UCSC.hg38.knownGene • reset
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promoters_txdb <- promoters(txdb, upstream = 2000) is not 2000
TxDb.Hsapiens.UCSC.hg38.knownGene
updated 4 months ago by 68k • written 4 months ago by ▴ 20
4
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8
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2.5k
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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
2.2 years ago davidhillis • 0
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2
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1.0k
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microRNAs not available in TxDb.Hsapiens.UCSC.hg38.knownGene
microRNA TxDb.Hsapiens.UCSC.hg38.knownGene
2.4 years ago • updated 2.3 years ago Lluís Revilla Sancho ▴ 760
2
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1
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4.8k
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Bioconductor Package Installation
install TxDb.Hsapiens.UCSC.hg38.knownGene
3.2 years ago Theresa ▴ 20
0
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3
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1.9k
views
transcripts are not true in TxDb.Hsapiens.UCSC.hg38.knownGene
TxDb.Hsapiens.UCSC.hg38.knownGene
updated 3.4 years ago by 16k • written 3.4 years ago by • 0
0
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1
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2.4k
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No 'TxDb.Hsapiens.UCSC.hg38.knownGene' object
TxDb.Hsapiens.UCSC.hg38.knownGene
updated 4.2 years ago by 68k • written 4.2 years ago by • 0
2
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4
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1.4k
views
Help with Missing Gene from hg38
annotation genome hg38 TxDb.Hsapiens.UCSC.hg38.knownGene BSgenome.Hsapiens.UCSC.hg38
updated 5.3 years ago by ▴ 160 • written 5.3 years ago by • 0
6
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5
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1.4k
views
PTEN missing from TxDb.Hsapiens.UCSC.hg38.knownGene?
TxDb annotation TxDb.Hsapiens.UCSC.hg38.knownGene
updated 5.3 years ago by 4.1k • written 5.3 years ago by ▴ 150
3
votes
1
reply
1.1k
views
HLA genes missing from TxDb.Hsapiens.UCSC.hg38.knownGene
HLA TxDb.Hsapiens.UCSC.hg38.knownGene
updated 5.3 years ago by ▴ 160 • written 5.3 years ago by ▴ 30
2
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10
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3.7k
views
TxDb.Hsapiens.UCSC.hg38.ensGene doesn't exist
TxDb.Hsapiens.UCSC.hg38.knownGene TxDb.Mmusculus.UCSC.mm10.ensGene
updated 5.6 years ago by 68k • written 5.6 years ago by ▴ 160
2
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5
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2.7k
views
How to construct a subset of TxDb object from TxDb.Hsapiens.UCSC.hg38.knownGene and selected genes
TxDb.Hsapiens.UCSC.hg38.knownGene subset TxDb object
6.0 years ago Ruichao.Zeng ▴ 20
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12
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3.7k
views
Error: C stack usage when installing Txdb package
txdb.hsapiens.ucsc.hg38.knowngene org.hs.eg.db
updated 7.4 years ago by ★ 3.8k • written 7.4 years ago by ★ 1.1k
1
vote
0
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1.8k
views
Issue with bumphunter and TxDb.Hsapiens.UCSC.hg38.knownGene that could be due to S4Vectors or an installation problem
s4vectors bumphunter txdb.hsapiens.ucsc.hg38.knowngene
7.6 years ago Leonardo Collado Torres ★ 1.1k
3
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3
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3.1k
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Transcripts in TxDb.Hsapiens.UCSC.hg38.knownGene but not in ucsc genome brower
annotation txdb.hsapiens.ucsc.hg38.knowngene bug
8.6 years ago shilin.zhao ▴ 40
9
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4
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4.0k
views
PDCD1 missing from TxDb.Hsapiens.UCSC.hg38.knownGene?
txdb txdb.hsapiens.ucsc.hg19.knowngene txdb.hsapiens.ucsc.hg38.knowngene org.hs.eg.db annotation
9.1 years ago enricoferrero ▴ 680
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Comment: DiffBind - question on the use of filtered or unfiltered input data by sloperun3az • 0
Your essay was beneficial to me, and I found it to be very useful. Thank you for writing it. You give a wealth of knowledge that is not onl…
Comment: compute_fasta_digest does not match Salmon index hash by sloperun3az • 0
The people who are reading your work are not taken into consideration, even though you appear to have a solid understanding of the subject …
Comment: parameters of filterByExpr by Paul Harrison ▴ 110
It might be worth trying limma-voom (or limma-trend) instead of a GLM based method. In our experience these are less prone to this problem.…
Comment: limma::voom vs edgeR::voomLmFit - when to use? by Gordon Smyth 52k
voomLmFit() is in edgeR instead of limma because it needs to call edgeR::glmFit() internally to determine which of the zero observations al…
Comment: limma::voom vs edgeR::voomLmFit - when to use? by Geoff • 0
Just wondering--why was this function put into `edgeR` rather than `limma`? Maybe a bit technical, but it is a little confusing from an out…
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Comment: Check removeBatchEffect effectiveness
Answer: Check removeBatchEffect effectiveness
A: what should I do with many zero counts from Salmon quantification
Comment: parameters of filterByExpr
GAlignments Cigar to GRanges
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