Showing : Genomicranges • reset
0
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Reproducibility of code in various Bioconductor versions
VariantAnnotation SNPlocs.Hsapiens.dbSNP155.GRCh38 dbSNP GenomicRanges
updated 2 days ago by 53k • written 3 days ago by • 0
2
votes
3
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626
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Guitar R package requires update due to dependency GenomicFeatures
GenomicFeatures Guitar txdbmaker GenomicRanges
written 8 weeks ago by ▴ 10
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1
reply
391
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Job: Bioinformatician at the Lausanne University Hospital
GenomicRanges JobPosting
written 3 months ago by ▴ 20
0
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1
reply
385
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Finding duplicated entries in GRangesList
GenomicRanges
updated 3 months ago by ★ 4.0k • written 6 months ago by • 0
1
vote
4
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How to left_join a tidySummarizedExperiment with a GRanges object by seqnames and start (tidyverse-style)?
GenomicRanges tidySummarizedExperiment tidyomics
10 months ago • updated 5 months ago Kateřina • 0
4
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2
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1.5k
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GAlignments Cigar to GRanges
GenomicRanges cigarRangesAlongReferenceSpace GenomicAlignments Cigar
9 months ago pineiroalejandro ▴ 10
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Significant Probes and Genes differ in Probe and Region level Differential Methylation Analyses
limma probe DMRcate GenomicRanges DifferentialMethylation
10 months ago jamiecatalano2 • 0
1
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4
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1.4k
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fast apply on RleList
GenomicRanges RleList
10 months ago story.benjamin ▴ 20
2
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1
reply
1.1k
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Having Trouble Using CNE12() and CNE21() in CNEr
GenomicRanges CNEr
10 months ago 1324087964 • 0
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1
reply
1.4k
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Using genomicRanges / plyranges to calculate score of peaks within intervals
plyranges GenomicRanges
updated 12 months ago by 43k • written 4.8 years ago by • 0
1
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1
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2.1k
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Reducing and aggregating GRanges with gaps using plyranges
GenomicRanges plyranges
updated 12 months ago by 43k • written 5.4 years ago by • 0
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0
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News: RNAseq data analysis with R/Bioconductor (4-15 November)
DESeq2 GenomicRanges
16 months ago info ▴ 10
3
votes
3
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938
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ISO a solution to rank-order introns by transcript
GenomicRanges GenomicFeatures
17 months ago • updated 14 months ago mat149 ▴ 80
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0
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645
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hichip fragments extraction chip seq
ChIPSeqData interact GenomicRanges HiC
18 months ago user_bioinfo • 0
2
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1
reply
720
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Trim/Filter out-of-bounds GRanges
GenomicRanges
updated 22 months ago by 43k • written 22 months ago by ▴ 80
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846
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Using Granges to find overlapping pairs at exactly 10kb distance
genomeIntervals GenomicRanges
23 months ago gshweta95 • 0
0
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0
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726
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ISO statistical test for obs-exp A,T,C,G counts by genomic range/position
GenomicRanges
2.0 years ago mat149 ▴ 80
2
votes
1
reply
982
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Need Help w/ Subset on GRangesList
GenomicRange GenomicRanges
2.1 years ago mat149 ▴ 80
0
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2
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1.5k
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GenomicRanges coult not be loaded after R upgrade
DESeq2 Bioconductor GenomicRanges
updated 2.8 years ago by • 0 • written 2.8 years ago by • 0
3
votes
4
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2.1k
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Error with importFrom and GenomicRanges in NAMESPACE
GenomicRanges IRanges
updated 3.0 years ago by 16k • written 3.0 years ago by • 0
0
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1
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1.2k
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Error printing a CompressedGRangesList
GenomicRanges
3.2 years ago • updated 3.0 years ago Lluís Revilla Sancho ▴ 760
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0
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1.2k
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Error importing UCSC phastCons annotation in BigWig format
GenomicRanges rtracklayer
3.1 years ago Delta._.43 ▴ 20
4
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4
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2.8k
views
Flank GenomicRanges on Both Sides
GenomicRanges
updated 3.1 years ago by 68k • written 3.1 years ago by ★ 1.6k
3
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1
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1.3k
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Find ranges that are shared by 80% or more of 10 GRanges objects
Granges GenomicRanges
updated 3.2 years ago by 43k • written 3.2 years ago by • 0
0
votes
2
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2.3k
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GenomicRanges method to make the total width of ranges a certain value?
GenomicRanges
updated 3.3 years ago by ★ 1.6k • written 3.3 years ago by • 0
2
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2
replies
3.6k
views
getSeq failing with DNAStringSet and GRanges
ORFik Bioconductor GenomicRanges Biostrings BSgenome
3.4 years ago Mog • 0
0
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0
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982
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nearest and nearestKNeighbors with k=1 produce different results
GenomicRanges
3.7 years ago Simon Coetzee ▴ 50
2
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3
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3.4k
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Combine GRanges(List) to a single GRanges with unified breakpoints
GenomicRanges plyranges
3.7 years ago Rodrigo • 0
0
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1
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1.9k
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Can´t install GenomicRanges and rtracklayer
rtracklayer GenomicRanges Installation
updated 3.7 years ago by 68k • written 3.7 years ago by • 0
3
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2
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2.4k
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toGRanges help!
GenomicRanges toGRanges Bioconductor
3.8 years ago samantha.haque • 0
1
vote
2
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2.5k
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Extracting Score/Coverage From GRange Object
IRanges rtracklayer GenomicRanges
3.9 years ago vanbelj ▴ 30
0
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1
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1.9k
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finding overlap using GenomicRanges with two data sets specifying minoverlap Function
Biostrings GenomicRanges
updated 3.9 years ago by ▴ 780 • written 3.9 years ago by • 0
1
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0
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1.3k
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How about a getSeq() method for GRanges ?
GenomicRanges BSGenome
3.9 years ago Charles Plessy ▴ 180
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2
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6.6k
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Gene body coverage plot
plot gene GenomicRanges Coverage R
updated 3.9 years ago by ▴ 20 • written 4.0 years ago by • 0
0
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6
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2.7k
views
Error: duplicate row.names
GenomicRanges methylKit S4Vectors
updated 3.9 years ago by 68k • written 3.9 years ago by • 0
0
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0
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1.3k
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Annotating copy number alterations per sample using CNVRanger R package and return of duplicated gene symbols
CopyNumberVariation CNVRanger GenomicRanges
4.0 years ago svlachavas ▴ 840
6
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2
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2.0k
views
strand-aware GRanges shift
GenomicRanges
updated 4.1 years ago by ★ 1.6k • written 4.1 years ago by ▴ 10
9
votes
9
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5.5k
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Subset GRanges by intersection
findOverlaps GPos GenomicRanges subsetByOverlaps
updated 4.1 years ago by 68k • written 4.1 years ago by ▴ 10
3
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5
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3.1k
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Splitting a TxDB or GRanges by Chromosome
GenomicRanges split chromosome TxDb
updated 4.2 years ago by 16k • written 4.2 years ago by ▴ 40
4
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1
reply
1.2k
views
`promoters()` fails on `GPos` objects
GenomicRanges
updated 4.3 years ago by 16k • written 4.3 years ago by ▴ 180
1
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3
replies
8.6k
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Understanding findoverlaps function in GenomicRanges
GenomicRanges genomicra
updated 4.3 years ago by 68k • written 4.3 years ago by ▴ 10
2
votes
4
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5.0k
views
How to simply change chromosome names of a GRanges object?
genomicrang GenomicRanges
updated 4.1 years ago by 16k • written 4.3 years ago by ▴ 20
0
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2
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1.9k
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Handling missing seqlenghts
GenomicRanges
4.3 years ago Charles Plessy ▴ 180
4
votes
2
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1.8k
views
GenomicRanges::union fails on R devel
devel GenomicRanges
4.4 years ago Guillaume Devailly ▴ 60
5
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2
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1.8k
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How to build a GRangesList where each GRanges element is a CDS coordinate of gene transcripts?
GenomicRanges sesame sesameData GenomicFeatures
4.5 years ago Pratik Mehta ▴ 10
2
votes
2
replies
2.0k
views
How to subset GRangesList by seqnames
GenomicRanges
updated 4.5 years ago by 68k • written 4.5 years ago by ▴ 10
3
votes
2
replies
2.3k
views
`GenomicRanges` cheat sheet
GenomicRanges
4.5 years ago chirag.parsania ▴ 10
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2
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1.7k
views
Failed to get promoters using promoters() in R 4.0.3.
promoter GenomicRanges rtracklayer GRanges
4.5 years ago Arslan • 0
0
votes
2
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1.6k
views
GRanges::distanceToNearest does not return distance to nearest
GenomicRanges Genomic
4.6 years ago • updated 4.5 years ago Daniel Cameron ▴ 40
2
votes
4
replies
2.2k
views
Unique GPos taking into account mcols
GenomicRanges unique GPos
4.6 years ago • updated 4.4 years ago maltethodberg ▴ 180
406 results • Page 1 of 9
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Comment: Can sample-level weights be used when analysing GSVA scores in limma? by A.Barden ▴ 20
Thanks both for this useful information.
Comment: Reproducibility of code in various Bioconductor versions by Gordon Smyth 53k
SNPlocs.Hsapiens.dbSNP155.GRCh38 is available for download from the same location as always. It has not changed since Bioc 3.20: Presumabl…
Comment: Changing multiple display parameters of a specific exon in GeneRegionTrack by a2a2hd42aa • 0
Similarly, for structural complexity in the [He777 Game][1] APK, having precise control over every detail is what makes a high-performance …
Answer: Issue loading and downloading Bioconductor 3.22 packages after update by strawberry3 • 0
Hi, thank you all for the advice. Using James's advice, I managed to install SNPlocs.Hsapiens.dbSNP155.GRCh38, but it took almost half an …
Answer: Issue loading and downloading Bioconductor 3.22 packages after update by James W. MacDonald 68k
As Robert and ATpoint have mentioned, you need to allow more time to download a large file like this. ``` > options(timeout = 5e5) > l…
Votes
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Comment: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Issue loading and downloading Bioconductor 3.22 packages after update
Answer: Issue loading and downloading Bioconductor 3.22 packages after update
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