Showing : genomeintervals • reset
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Using Granges to find overlapping pairs at exactly 10kb distance
genomeIntervals GenomicRanges
11 months ago gshweta95 • 0
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3
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1.7k
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GRanges object from gene list
granges bed genomicranges genomeintervals deseq2
7.1 years ago rbronste ▴ 60
2
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1.8k
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Extracting UTRs from exon and CDS data
genomeintervals UTRs exons CDS GenomicRanges
updated 7.6 years ago by ★ 11k • written 7.6 years ago by ▴ 110
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2
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What is the main difference between nclist and intervaltree algorithm in GenomicRanges packages ?
nclist genomeintervals
updated 9.1 years ago by 16k • written 9.1 years ago by ▴ 80
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1.4k
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cannot load genomeIntervals package
genomeIntervals
updated 9.7 years ago by ▴ 320 • written 9.9 years ago by • 0
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2.0k
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Bug: readGff3 isRightOpen should be FALSE
genomeintervals
updated 9.7 years ago by ▴ 320 • written 9.7 years ago by • 0
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2.8k
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biocLite("TxDb.Hsapiens.UCSC.hg19.knownGene") fails
BSgenome hexbin BSgenome IRanges genomeIntervals GenomicRanges girafe Rsamtools HiTC HiTC
updated 12.0 years ago by ★ 8.2k • written 12.0 years ago by ▴ 100
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convert "Genome_intervals_stranded" to "Genome_intervals"? (girafe)
Annotation convert genomeIntervals Annotation convert genomeIntervals
13.0 years ago delhomme@embl.de ★ 1.2k
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gff files: how to tell if right-open interval convention used?
genomeIntervals genomeIntervals
updated 13.9 years ago by 16k • written 13.9 years ago by ▴ 50
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stranded findOverlaps
Sequencing Annotation GO rtracklayer IRanges genomeIntervals Sequencing Annotation GO
15.1 years ago Robert Castelo ★ 3.4k
10 results • Page 1 of 1
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Answer: cameraPR() non directional test by Gordon Smyth 52k
Yes, you can still do non-directional tests using cameraPR(), but it's not quite as easy as it was using the original camera() function as …
Answer: WGCNA with paired samples by Ivo • 0
You can use batch correction on the person ID and then continue WGCNA as usual using the corrected matrix. You can use e.g. sva::ComBat or …
Answer: Plot title for PCA in DESeq2 by ATpoint ★ 4.7k
The function uses ggplot2, so you need `+ ggtitle('title')`. Please take a ggplot2 tutorial for details.
Comment: DESeq2 It is correct to use interaction term for patient variability? by Bradley • 0
I apologize, but I am still perplexed. I need to know the exact type of replication. Do we have many samples taken from the same tumor? You…
Comment: Differential variance analysis - can i use deseq2 by Michael Love 43k
VST is valid for working with expression data on a variance stabilized scale, so yes. There are many papers that have used VST and then com…
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Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Answer: normalizatino of dna methylation EPIC data
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
Suggesting changing the "reply-to" field to the mailing list address.
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