Showing : GenomicRanges • reset
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Return features from a single strand using vmatchPattern
biostrings genomicranges
updated 8.9 years ago by 16k • written 9.0 years ago by ▴ 70
5
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3
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1.7k
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How to avoid repeated overlap pair for GRanges object in grid?
r genomicranges
9.3 years ago • updated 9.0 years ago Jurat Shahidin ▴ 80
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5
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1.9k
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GRanges nearest fails for non-overlapping regions
bug genomicranges granges nearest
9.0 years ago dondelelcaro ▴ 10
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2
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1.1k
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GenomicRanges installation problem
DESeq2 GenomicRanges
9.0 years ago David R ▴ 90
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2
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2.4k
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GenomicRanges: `seqnames<-` can not work as expected
genomicranges seqnames factor
9.0 years ago wcstcyx ▴ 30
3
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5
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1.6k
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Operations across Lists of GenomicRanges?
genomicranges lists plyr
updated 9.1 years ago by ★ 11k • written 9.1 years ago by • 0
5
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3
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countOverlaps with weights
genomicranges countoverlaps
updated 9.1 years ago by 25k • written 9.1 years ago by ▴ 180
2
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4
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2.0k
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Any way to combine two GRangesList easily ?
genomicranges grangeslist r
updated 9.1 years ago by ★ 11k • written 9.1 years ago by ▴ 80
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0
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1.5k
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Enrichment of GWAS SNPs in regulatory regions
genomicranges enrichment fisher
9.1 years ago enricoferrero ▴ 680
3
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4
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6.2k
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GenomicRanges: Take union of GRanges and keep metadata?
GRange genomicranges
updated 9.2 years ago by 25k • written 9.2 years ago by ▴ 40
5
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2
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6.5k
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setdiff for GenomicRanges
genomicranges
updated 9.2 years ago by ★ 11k • written 9.2 years ago by ★ 4.3k
2
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1
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1.9k
views
setdiff between GenomicRanges objects keeping metadata
genomicranges
updated 9.2 years ago by ★ 11k • written 9.2 years ago by ★ 4.3k
1
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14
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2.9k
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DistanceToNearest() error: 'nLnode' and 'nRnode' must be single integers
genomicranges DistanceToNearest
updated 9.2 years ago by ★ 6.8k • written 9.2 years ago by ▴ 20
2
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4
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2.4k
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Genomic Ranges findOverlaps by sample
genomicranges
updated 9.2 years ago by ★ 11k • written 9.2 years ago by • 0
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4
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1.5k
views
apply over the 'rows' of a GRanges object (and/or: is there a fiveprime() function for GRanges objects?)
granges genomicranges
updated 9.2 years ago by ★ 11k • written 9.2 years ago by ▴ 160
3
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2
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1.4k
views
Match all DNAString Occurences in a BSgenome
bsgenome genomicranges function creation
9.2 years ago ewjwallace ▴ 10
1
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2
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1.0k
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seg fault when trying to load GenomicRanges (SOLVED)
genomicranges software error
9.2 years ago ewjwallace ▴ 10
1
vote
2
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1.4k
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Locating enhancers that are mutated
snv granges genomicranges variantannotation indel
updated 9.2 years ago by ★ 11k • written 9.2 years ago by • 0
2
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4
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2.1k
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Issue with GenomicRanges in windows 3.3.1
genomicranges windows 7
updated 9.2 years ago by 25k • written 9.2 years ago by ▴ 20
1
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3
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1.4k
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Positions to genes in minfi
genomicranges minfi
9.3 years ago • updated 9.2 years ago Asma rabe ▴ 290
3
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5
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2.1k
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Extract coordinates of overlapping genomic intervals
genomicranges findoverlaps intersect
updated 9.3 years ago by ★ 13k • written 9.3 years ago by ▴ 110
0
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1
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1.3k
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Union of GenomicRanges problem when one range is empty
genomicranges R cnv
9.3 years ago WouterDeCoster ▴ 130
3
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5
replies
1.9k
views
How to sort set of GRanges object in the list by increasing order?
granges grangeslist genomicranges
9.3 years ago Jurat Shahidin ▴ 80
8
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3
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1.9k
views
Counting ambiguously mapped reads per feature
rnaseq bam genomicranges GenomicAlignments Rsamtools
updated 9.3 years ago by 53k • written 9.3 years ago by ▴ 110
4
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5
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2.7k
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Clustering GRanges combining percent overlap and categorical variable
genomicranges
updated 9.3 years ago by 16k • written 9.3 years ago by • 0
0
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2
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1.1k
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Set Operations Methods from GenomicRanges Not Working
genomicranges
updated 9.3 years ago by 25k • written 9.3 years ago by • 0
3
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4
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2.7k
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ChIPseeker::vennplot() fails with Error in ss[[1]] : subscript out of bounds
chipseeker venn vennplot genomicranges granges
9.4 years ago enricoferrero ▴ 680
0
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2
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1.4k
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Runing into error while trying GRanges from R
rnaseq bumphunter genomicranges
9.4 years ago alva.james • 0
0
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3
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1.3k
views
segfault for countOverlaps
genomicranges IRanges
9.4 years ago Stephen Cristiano • 0
1
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1
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2.1k
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Behaviour of within in findOverlaps function in connection with maxgap parameter
IRanges genomicranges
updated 9.4 years ago by 16k • written 9.4 years ago by ▴ 10
3
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2
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2.0k
views
Proper way to read in a DataFrame with CharacterList columns that was saved to a text file
s4vectors genomicranges
updated 9.4 years ago by ★ 11k • written 9.4 years ago by ★ 1.1k
6
votes
2
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5.5k
views
How to get the intersect and get the difference of a grange object while keeping meta data
genomicranges intersect
updated 9.4 years ago by 4.2k • written 9.5 years ago by ▴ 30
15
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4
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13k
views
How to convert a GRangesList object into a GRanges object?
genomicranges grangeslist granges s4
updated 3.6 years ago by 16k • written 9.4 years ago by ▴ 40
2
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10
replies
2.4k
views
Reorder exons on negative strand in GRanges list
genomicranges
updated 9.5 years ago by ★ 11k • written 9.5 years ago by ▴ 90
5
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8
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3.2k
views
closest-features equivalent in Bioconductor for finding closest gene(s)
genomicranges granges iranges annotatepeak
updated 9.5 years ago by ★ 11k • written 9.5 years ago by ▴ 80
0
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0
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1.3k
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extractUpstreamSeqs with custom genome, no gene_id shown
genomicranges txdb genomicfeatures featureextraction
updated 9.6 years ago by 25k • written 9.6 years ago by ▴ 30
1
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4
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1.6k
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calculate total transcript length from DisjointExons output (Genomic Ranges Object)
genomicfeatures non overlapping exons genomicranges granges
updated 9.6 years ago by ★ 11k • written 9.6 years ago by ▴ 30
2
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1
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1.9k
views
Update bioconductor in R 3.2.4
GenomicRanges biocupgrade
updated 9.6 years ago by ★ 8.2k • written 9.6 years ago by ▴ 40
0
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6
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2.4k
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Is that an efficient way to find the overlapped , upstream and downstream genes for a bunch of genes
genomicranges geneoverlap findoverlaps
updated 9.6 years ago by ★ 11k • written 9.6 years ago by • 0
1
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3
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1.2k
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Extract information from GenomicRanges
genomicranges genomicfeatures
9.6 years ago ribioinfo ▴ 100
0
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2
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1.7k
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How to set a negative coverage to ZERO
genomicranges coverage
updated 9.6 years ago by 25k • written 9.6 years ago by • 0
0
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5
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2.1k
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how to annotate GenomicRanges objects with genome build
grangeslist rangedsummarizedexperiment parathyroidSE genomicranges granges
9.7 years ago Levi Waldron ★ 1.1k
7
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0
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4.5k
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Tutorial: New edX "Data analysis for Life Sciences" module: High performance computing for reproducible genomics
annotation genomicranges visualization docker shiny Tutorial
9.7 years ago Vincent J. Carey, Jr. 6.7k
4
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1
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1.5k
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Select from Overlapping Genomic Ranges based on Score or other Metadata
genomicranges
updated 9.7 years ago by ★ 11k • written 9.7 years ago by ▴ 30
10
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3
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11k
views
resize (shrink/expand) GenomicRanges
GenomicRanges IRanges
updated 9.7 years ago by 16k • written 9.7 years ago by ▴ 40
0
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1
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1.3k
views
width(GRanges) increases after randomizeRegions(..) in package RegioneR
genomicranges regioneR width
updated 9.8 years ago by ▴ 150 • written 9.8 years ago by ▴ 40
4
votes
5
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1.6k
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Write multiple UTRs for a gene to a fasta file
genomicranges genomicfeatures
updated 9.8 years ago by ★ 11k • written 9.8 years ago by ▴ 90
4
votes
5
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2.5k
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GRangesList and `seqlevels<-` with force=TRUE
GRangesList GenomicRanges
updated 9.8 years ago by 16k • written 9.8 years ago by ★ 3.8k
9
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11
replies
5.2k
views
looping through a GRangesList object
GenomicRanges GRangesList
updated 9.8 years ago by ★ 1.3k • written 9.8 years ago by ★ 3.8k
1
vote
1
reply
6.0k
views
Error trying to install GenomicRanges
cummerbund rtracklayer genomicranges s4vectors iranges
updated 9.8 years ago by ★ 6.6k • written 9.8 years ago by • 0
403 results • Page 5 of 9
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Comment: Save the Date: BioC2026 by eja.gsssssswwse.r.m • 0
Que notícia incrivel sobre o BioC2026 Para quem gosta de aproveitar o conteudo online, também e possvel Baixar [snaptube versão antiga][1] …
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Keeping up with Ensembls latest release ensures access to cutting-edge genomic information. For those balancing research and leisure, a mob…
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Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
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Hi, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to filtering ap…
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Hi, You have correctly identified the issue: AUCell's automatic threshold selection is conservative by design, aiming for specificity to…
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