Showing : promoter • reset
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Failed to get promoters using promoters() in R 4.0.3.
promoter GenomicRanges rtracklayer GRanges
4.3 years ago Arslan • 0
3
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6
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1.9k
views
Better way to find head to head GRanges?
promoter
updated 5.6 years ago by 16k • written 5.6 years ago by ▴ 180
1
vote
3
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1.8k
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Obtain coordinates of 5' upstream region up to closest coding region
r granges promoter
updated 6.8 years ago by 16k • written 6.8 years ago by • 0
0
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0
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1.4k
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CAGEr get TSS in bed file
TSS promoter cage cager
7.1 years ago bharata1803 ▴ 60
0
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0
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1.8k
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GenomicFeatures: How to extract a gene's upstream region of TSS up to the end position of the flanking (nearby) gene.
genomicranges genomicfeatures promoter upstream_flank
7.2 years ago Wojeff • 0
0
votes
3
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2.7k
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How to handle multi-TSS genes in Repitools?
repitools promoter tss annotation
7.8 years ago Ryan C. Thompson ★ 7.9k
1
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5
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2.6k
views
Extract genomic features from a TxDb-like object
TxDB genomicfeatures promoter getpromoterseq
updated 7.8 years ago by 16k • written 7.8 years ago by ▴ 50
1
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2
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1.7k
views
DEXseq for alternate promoter usage
dexseq promoter utr
updated 9.5 years ago by ★ 1.9k • written 9.5 years ago by • 0
1
vote
6
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2.6k
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problem creating txdb object and bsgenome for solanum pennellii
bsgenome txdb promoter
updated 9.9 years ago by 25k • written 9.9 years ago by ▴ 20
2
votes
2
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3.6k
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using the "promoters" function with an "OrganismDb" to generate "GRanges" with "REFSEQ" rather than UCSC gene names
promoter granges refseq ucsc organismdb
updated 10.1 years ago by ★ 3.4k • written 10.1 years ago by ▴ 10
2
votes
2
replies
1.9k
views
promoter definition in VariantAnnotation
VariantAnnotation promoter drosophila melanogaster
updated 10.9 years ago by ★ 6.8k • written 10.9 years ago by ▴ 30
11 results • Page 1 of 1
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Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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