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Showing :
granges
•
reset
0
votes
5
replies
2.1k
views
how to annotate GenomicRanges objects with genome build
grangeslist
rangedsummarizedexperiment
parathyroidSE
genomicranges
granges
9.6 years ago
Levi Waldron
★ 1.1k
2
votes
2
replies
2.6k
views
How to get list of E.coli genes wit their details on Genome?
biomart
maketxdbfrombiomart
granges
updated 9.6 years ago by
Vincent J. Carey, Jr.
6.7k • written 9.6 years ago by
vinod.acear
▴ 50
0
votes
1
reply
1.6k
views
How to find index position of desired feature_by in TxDb granges?
granges
txdb
genomicfeatures
updated 9.7 years ago by
Martin Morgan
25k • written 9.7 years ago by
vinod.acear
▴ 50
2
votes
2
replies
1.7k
views
How to rename seqlevels style (I, II, III, ...,XVI, Mito to 1,2,3,...16, 17.) in txdb granges?
renameSeqlevels
mapSeqlevels
grangeslist
granges
txdb
9.7 years ago
vinod.acear
▴ 50
0
votes
1
reply
1.6k
views
Gviz Group of different sizes
gviz
R
granges
updated 9.7 years ago by
florian.hahne@novartis.com
★ 1.6k • written 9.7 years ago by
drummerz
• 0
0
votes
2
replies
3.4k
views
rtracklayer /GRange object to BED format?
granges
rtracklayer
updated 9.7 years ago by
Michael Lawrence
★ 11k • written 9.7 years ago by
Vang Le
▴ 80
6
votes
7
replies
5.1k
views
unexpected error when creating GRanges object by calling makeGRangesFromDataFrame()
r
error handling
granges
updated 9.7 years ago by
Hervé Pagès
16k • written 9.7 years ago by
Jurat Shahidin
▴ 80
0
votes
2
replies
1.5k
views
GenomicInteractions read in bedpe error
genomicinteractions
GRanges
updated 9.7 years ago by
liz.ingsimmons
▴ 140 • written 9.7 years ago by
tangming2005
▴ 200
0
votes
1
reply
4.2k
views
Subset VCF files using multiple criteria
vcf
variantannotation
granges
9.7 years ago
georgewwp
• 0
6
votes
11
replies
8.7k
views
How do I split GRange object (set of genomic ranges with 2 metadata column) by chromosome?
granges
split
r
updated 3.9 years ago by
jon.klonowski
▴ 40 • written 9.8 years ago by
Jurat Shahidin
▴ 80
2
votes
3
replies
2.8k
views
ggbio circular plot
ggbio
SNP
granges
updated 9.9 years ago by
Michael Lawrence
★ 11k • written 9.9 years ago by
Marcin Grzybowski
• 0
1
vote
4
replies
1.8k
views
subsetting a GRanges object with IntegerList and CharacterList metadata columns
granges
genomicranges
updated 9.9 years ago by
Michael Lawrence
★ 11k • written 9.9 years ago by
efoss
▴ 10
1
vote
2
replies
1.3k
views
How to find similar ranges without algorithm="intervaltree"
granges
genomicranges
iranges
updated 9.9 years ago by
Hervé Pagès
16k • written 9.9 years ago by
Daniel Cameron
▴ 40
0
votes
1
reply
1.3k
views
diffHic package plotPlaid. Visualize multiple inter-chromosomal and intra-chromosomal interactions in the same heatmap
diffhic
GRanges
updated 9.9 years ago by
Aaron Lun
★ 29k • written 9.9 years ago by
rulicosentino
• 0
2
votes
2
replies
3.6k
views
using the "promoters" function with an "OrganismDb" to generate "GRanges" with "REFSEQ" rather than UCSC gene names
promoter
granges
refseq
ucsc
organismdb
updated 9.9 years ago by
Robert Castelo
★ 3.4k • written 9.9 years ago by
efoss
▴ 10
6
votes
1
reply
2.4k
views
Retrieving Regions from hg38 of the same GC content and length with a list of elements
regioneR
GRanges
GCcontent
updated 9.9 years ago by
bernatgel
▴ 150 • written 9.9 years ago by
Dimitris Polychronopoulos
▴ 80
0
votes
3
replies
1.5k
views
Sampling protein coding genes of the same length distribution as another set of elements using GRanges
granges
R
sample
updated 10.0 years ago by
Julian Gehring
★ 1.3k • written 10.0 years ago by
Dimitris Polychronopoulos
▴ 80
0
votes
3
replies
2.2k
views
I want have a score vector of length of grange that is overlapping with other grange.
granges
findoverlaps
subsetbyoverlaps
updated 10.0 years ago by
Michael Lawrence
★ 11k • written 10.0 years ago by
vinod.acear
▴ 50
9
votes
3
replies
5.5k
views
how to extract Granges not overlapping with other ganges?
Granges
findoverlaps
updated 10.0 years ago by
James W. MacDonald
68k • written 10.0 years ago by
vinod.acear
▴ 50
3
votes
2
replies
2.1k
views
how much positions overlapped for each pair of the pairs obtained by findoverlap.
granges
genomicranges
findoverlaps
subsetbyoverlaps
updated 10.0 years ago by
Hervé Pagès
16k • written 10.0 years ago by
vinod.acear
▴ 50
2
votes
10
replies
4.5k
views
Extract three types of intergenic regions
granges
views
annotation
iranges
updated 10.0 years ago by
Thomas Girke
★ 1.7k • written 10.0 years ago by
vinod.acear
▴ 50
1
vote
2
replies
1.0k
views
Non overlaps seqence
granges
updated 10.0 years ago by
Michael Lawrence
★ 11k • written 10.0 years ago by
Marcin Grzybowski
• 0
3
votes
3
replies
2.0k
views
Sorting data frame derived from GRanges
granges
data.frame
sort
updated 10.0 years ago by
Michael Lawrence
★ 11k • written 10.0 years ago by
igor
▴ 50
1
vote
13
replies
3.3k
views
Rsamtools memory leak
rsamtools
scanbam
bam
granges
iranges
10.0 years ago
mhills
▴ 10
0
votes
3
replies
1.6k
views
View of subsequences corresponding granges on +ve strand and rev. complementary of seq on -ve strand.
Views
granges
grangeslist
iranges
updated 10.0 years ago by
Hervé Pagès
16k • written 10.0 years ago by
vinod.acear
▴ 50
2
votes
5
replies
2.8k
views
Intersecting a Granges and a GRangesList using within
granges
grangeslist
findoverlaps
updated 10.1 years ago by
Hervé Pagès
16k • written 10.1 years ago by
d r
▴ 150
1
vote
3
replies
1.3k
views
ignore.strand option in range() when using GRangesList
granges
10.1 years ago
d r
▴ 150
3
votes
2
replies
1.6k
views
gene model generation support?
granges
gene models
GenomicFeatures
10.5 years ago • updated 10.2 years ago
Vincent J. Carey, Jr.
6.7k
0
votes
1
reply
1.5k
views
circular display in ggbio
ggbio
granges
10.3 years ago • updated 10.2 years ago
Bogdan
▴ 670
0
votes
4
replies
2.0k
views
browserSession for Arabidopsis
rtracklayer
Granges
spliceR
updated 10.3 years ago by
Michael Lawrence
★ 11k • written 10.3 years ago by
mfahim
• 0
4
votes
2
replies
1.8k
views
Slice of aligned sequences
bam
granges
genomicalignments
updated 10.3 years ago by
Hervé Pagès
16k • written 10.3 years ago by
Thomas Poulsen
▴ 10
1
vote
2
replies
1.1k
views
GRanges / IRanges maxgap behaviour change raises no warning
genomicranges
granges
iranges
updated 10.4 years ago by
Hervé Pagès
16k • written 10.4 years ago by
Daniel Cameron
▴ 40
2
votes
5
replies
2.6k
views
From a GRanges object to a GRangeList
granges
grangeslist
updated 10.5 years ago by
James W. MacDonald
68k • written 10.5 years ago by
Patrick Schorderet
▴ 20
2
votes
3
replies
8.4k
views
GRanges - changing seqlevels
granges
seqlevels
10.5 years ago
Hermann Norpois
▴ 170
5
votes
3
replies
2.2k
views
Calling coverage on GRanges object yields small negative values
granges
coverage
updated 10.5 years ago by
Hervé Pagès
16k • written 10.6 years ago by
Anya
▴ 10
17
votes
4
replies
18k
views
How to properly sort GRanges?
granges
genomicranges
sort
seqnames
order
updated 10.5 years ago by
yinghua
▴ 30 • written 11.0 years ago by
enricoferrero
▴ 680
2
votes
6
replies
3.4k
views
Shrink or Expand RLE
RLE
iranges
granges
coverage
updated 10.6 years ago by
Martin Morgan
25k • written 10.6 years ago by
gen
▴ 30
0
votes
1
reply
1.5k
views
Mean Coverage version of stat_coverage and coverage?
grangeslist
granges
Genomicfeatures
bam
10.6 years ago
gen
▴ 30
2
votes
4
replies
2.5k
views
Editing of GAlignments
granges
rsamtools
bioconductor
updated 10.7 years ago by
Martin Morgan
25k • written 10.7 years ago by
gen
▴ 30
3
votes
5
replies
3.9k
views
Add Custom Annotations to Multi-Sample VCF with VariantAnnotation() package
variantannotation
granges
DNAStringSetList
findoverlaps
Vranges
10.7 years ago
summerela
• 0
10
votes
8
replies
3.3k
views
Transitive overlaps of GRanges object
granges
findOverlaps
updated 10.7 years ago by
Hervé Pagès
16k • written 10.7 years ago by
Stefanie Tauber
▴ 40
1
vote
1
reply
1.7k
views
Conversion of BSgenome format to GRanges format?
bsgenome
granges
bam
updated 10.7 years ago by
James W. MacDonald
68k • written 10.7 years ago by
pterry
• 0
8
votes
5
replies
3.2k
views
import wig to coverage
rtracklayer
granges
import.wig
updated 10.7 years ago by
Hervé Pagès
16k • written 10.8 years ago by
liz.ingsimmons
▴ 140
4
votes
3
replies
1.3k
views
stacking (partially or completely overlapping) GRanges/IRanges
granges
iranges
rnaseq
updated 10.7 years ago by
Martin Morgan
25k • written 10.7 years ago by
Johannes Rainer
★ 2.1k
0
votes
1
reply
1.7k
views
ggbio, overview circular plot, BSgenome, bam to GRanges?
ggbio
GRanges
ggbio
GRanges
10.8 years ago
pterry
• 0
2
votes
2
replies
1.3k
views
DiffBind individual sample concentrations for differentially bound sites
diffbind
granges
updated 10.9 years ago by
Rory Stark
★ 5.2k • written 10.9 years ago by
igor
▴ 50
3
votes
5
replies
5.3k
views
GRanges returning warning message: 'ranges' contains values outside of sequence bounds.
granges
updated 10.9 years ago by
Hervé Pagès
16k • written 11.0 years ago by
piotr.grabowski
▴ 10
4
votes
2
replies
2.2k
views
Combine two GRanges to a single GRangesList
granges
grangeslist
GenomicRanges
updated 10.9 years ago by
Martin Morgan
25k • written 10.9 years ago by
Sean Davis
21k
1
vote
2
replies
4.1k
views
about appending GRANGES
GRanges
10.9 years ago
Bogdan
▴ 670
0
votes
2
replies
1.9k
views
"for loop" and AUTOPLOT function
ggbio
granges
10.9 years ago
Bogdan
▴ 670
206 results • Page
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