Showing : genomeintervals • reset
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gff files: how to tell if right-open interval convention used?
genomeIntervals genomeIntervals
updated 13.1 years ago by 16k • written 13.1 years ago by ▴ 50
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1.3k
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What is the main difference between nclist and intervaltree algorithm in GenomicRanges packages ?
nclist genomeintervals
updated 8.3 years ago by 16k • written 8.3 years ago by ▴ 80
2
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1.6k
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Extracting UTRs from exon and CDS data
genomeintervals UTRs exons CDS GenomicRanges
updated 6.8 years ago by ★ 11k • written 6.8 years ago by ▴ 110
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3
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1.4k
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GRanges object from gene list
granges bed genomicranges genomeintervals deseq2
6.3 years ago rbronste ▴ 60
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2.6k
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biocLite("TxDb.Hsapiens.UCSC.hg19.knownGene") fails
BSgenome hexbin BSgenome IRanges genomeIntervals GenomicRanges girafe Rsamtools HiTC HiTC
updated 11.1 years ago by ★ 8.2k • written 11.1 years ago by ▴ 100
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cannot load genomeIntervals package
genomeIntervals
updated 8.9 years ago by ▴ 320 • written 9.1 years ago by • 0
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8
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1.6k
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Bug: readGff3 isRightOpen should be FALSE
genomeintervals
updated 8.9 years ago by ▴ 320 • written 8.9 years ago by • 0
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1.1k
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stranded findOverlaps
Sequencing Annotation GO rtracklayer IRanges genomeIntervals Sequencing Annotation GO
14.3 years ago Robert Castelo ★ 3.3k
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convert "Genome_intervals_stranded" to "Genome_intervals"? (girafe)
Annotation convert genomeIntervals Annotation convert genomeIntervals
12.2 years ago delhomme@embl.de ★ 1.2k
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Using Granges to find overlapping pairs at exactly 10kb distance
genomeIntervals GenomicRanges
5 weeks ago gshweta95 • 0
10 results • Page 1 of 1
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Comment: Too many significant genes when integrating gtex and tcga by Michael Love 41k
Yes, this was one of the aspects we highlighted in the 2014 paper, and it's also in the workflow. Check these places first. Also take a st…
Answer: Too many significant genes when integrating gtex and tcga by James W. MacDonald 65k
See `?results`, in particular the lfcThreshold argument.
Comment: Once again a "Model matrix not full rank" by James W. MacDonald 65k
You already ran a temporal assay. Now you can compare each time point to the baseline. The interaction term is only applicable if you have…
Comment: Timecourse RNASeq analysis by Aurora • 0
I managed to run ImpulseDE2 as I am interested in getting significant gene changes over time. Now I would like to run deseq as well and com…
Comment: Once again a "Model matrix not full rank" by arfranco ▴ 130
But.. How to run a temporal assay?
Votes
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
stuck on unimplemented type 'list' in 'EncodeElement'
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