Showing : genomeintervals • reset
2
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GRanges object from gene list
granges bed genomicranges genomeintervals deseq2
4.4 years ago rbronste ▴ 60
2
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1
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1.1k
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Extracting UTRs from exon and CDS data
genomeintervals UTRs exons CDS GenomicRanges
updated 4.8 years ago by 11k • written 4.8 years ago by ▴ 100
3
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2
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891
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What is the main difference between nclist and intervaltree algorithm in GenomicRanges packages ?
nclist genomeintervals
updated 6.3 years ago by 15k • written 6.3 years ago by ▴ 70
0
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1
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849
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cannot load genomeIntervals package
genomeIntervals
updated 6.9 years ago by ▴ 320 • written 7.2 years ago by • 0
1
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8
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1.1k
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Bug: readGff3 isRightOpen should be FALSE
genomeintervals
updated 6.9 years ago by ▴ 320 • written 6.9 years ago by • 0
0
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1
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2.1k
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biocLite("TxDb.Hsapiens.UCSC.hg19.knownGene") fails
BSgenome hexbin BSgenome IRanges genomeIntervals GenomicRanges girafe Rsamtools HiTC HiTC
updated 9.2 years ago by ★ 8.2k • written 9.2 years ago by ▴ 100
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convert "Genome_intervals_stranded" to "Genome_intervals"? (girafe)
Annotation convert genomeIntervals Annotation convert genomeIntervals
10.3 years ago delhomme@embl.de ★ 1.2k
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650
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gff files: how to tell if right-open interval convention used?
genomeIntervals genomeIntervals
updated 11.2 years ago by 15k • written 11.2 years ago by ▴ 50
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720
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stranded findOverlaps
Sequencing Annotation GO rtracklayer IRanges genomeIntervals Sequencing Annotation GO
12.3 years ago Robert Castelo ★ 2.9k
9 results • Page 1 of 1
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Comment: Italicise by Pau • 0
They're the same: example of the vignette: "italic('VCAM1')" and result from my data: "italic('CARS1')" As I am running against time be…
Comment: Can Differential Isoform expression analysis can be performed using DESeq2 packa by priyanka.m • 0
Thank you for the suggestions. I will try to compare my results and accordingly interpret the two.
Answer: [sva] Error in density.default(x, adjust = adj) : 'x' contains missing values by wahaha • 0
I found the reason, because some gene expression levels are 0 in all samples. you can add these code to check the data: >exp_mean <- appl…
Answer: DESeq2 how to specify contrast to test difference of differences by Nicole • 0
The comment from @mikelove about specifying numeric contrasts answered my question. This code is not standalone, but I will leave it here i…
Comment: DESeq2 how to specify contrast to test difference of differences by Nicole • 0
Thank you, @mikelove - that did it! The results make sense now. From my original post, could you clarify what the `group1w.sexfemale` contr…
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Answer: DESeq2 how to specify contrast to test difference of differences
Comment: DESeq2 how to specify contrast to test difference of differences
Answer: Confused about the design matrix in edgeR: How to tell R to consider one level a
Answer: biomaRt error unable to fix: need help troubleshooting
Answer: edgeR : results from goana and kegga functions show opposite sig. p-value
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