Showing : genomeintervals • reset
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Using Granges to find overlapping pairs at exactly 10kb distance
genomeIntervals GenomicRanges
9 months ago gshweta95 • 0
2
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3
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1.6k
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GRanges object from gene list
granges bed genomicranges genomeintervals deseq2
6.9 years ago rbronste ▴ 60
2
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1
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1.8k
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Extracting UTRs from exon and CDS data
genomeintervals UTRs exons CDS GenomicRanges
updated 7.4 years ago by ★ 11k • written 7.4 years ago by ▴ 110
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2
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1.5k
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What is the main difference between nclist and intervaltree algorithm in GenomicRanges packages ?
nclist genomeintervals
updated 8.9 years ago by 16k • written 8.9 years ago by ▴ 80
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1.3k
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cannot load genomeIntervals package
genomeIntervals
updated 9.5 years ago by ▴ 320 • written 9.7 years ago by • 0
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8
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1.9k
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Bug: readGff3 isRightOpen should be FALSE
genomeintervals
updated 9.5 years ago by ▴ 320 • written 9.5 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 11.8 years ago by ★ 8.2k • written 11.8 years ago by ▴ 100
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convert "Genome_intervals_stranded" to "Genome_intervals"? (girafe)
Annotation convert genomeIntervals Annotation convert genomeIntervals
12.8 years ago delhomme@embl.de ★ 1.2k
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1.1k
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gff files: how to tell if right-open interval convention used?
genomeIntervals genomeIntervals
updated 13.7 years ago by 16k • written 13.7 years ago by ▴ 50
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stranded findOverlaps
Sequencing Annotation GO rtracklayer IRanges genomeIntervals Sequencing Annotation GO
14.9 years ago Robert Castelo ★ 3.4k
10 results • Page 1 of 1
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Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by yinhjk602 • 0
https://sprunkiphase4.net/ Sprunki Phase 4 is the latest update in the music rhythm game, offering new beats, characters, and challenges. Y…
Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40
Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …
Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
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Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
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