Showing : findoverlaps • reset
9
votes
9
replies
4.8k
views
Subset GRanges by intersection
findOverlaps GPos GenomicRanges subsetByOverlaps
updated 3.3 years ago by 68k • written 3.4 years ago by ▴ 10
2
votes
3
replies
1.4k
views
Can GenomicRanges findOverlaps ignore seqnames?
GenomicRanges findOverlaps
5.6 years ago O. William McClung • 0
7
votes
5
replies
4.7k
views
summarize scores of GRanges into bins
genomicranges grangeslist bin findoverlaps
updated 6.6 years ago by • 0 • written 7.7 years ago by ★ 1.5k
0
votes
3
replies
1.5k
views
GenomicRanges based on indices or more conditions, and add column from match
genomicranges iranges findoverlaps
6.6 years ago francesca casalino ▴ 50
0
votes
1
reply
1.1k
views
R_Granges_adding merged Metadata columns
granges findoverlaps
7.1 years ago me.saichi • 0
2
votes
8
replies
6.1k
views
GenomicRanges: identify overlapping regions, get intersection between each overlapping pair and add gene coordinates (start, end, strand and ids)
genomicranges overlap intersect findoverlaps
7.3 years ago Caroline Grisbach Meissner ▴ 10
2
votes
3
replies
2.5k
views
subsetByOverlaps with Multimapping
genomicranges subsetbyoverlaps granges findoverlaps
7.7 years ago Assa Yeroslaviz ★ 1.5k
0
votes
10
replies
2.5k
views
behaviour of findOverlaps on GRangesList object
findOverlaps grangeslist GenomicRanges
7.9 years ago lovro0 ▴ 10
1
vote
1
reply
1.1k
views
Obtain exactly the interval that overlap
findoverlaps Granges
updated 8.0 years ago by ★ 11k • written 8.0 years ago by ▴ 30
2
votes
2
replies
1.3k
views
Findoverlaps insame sample
genomicranges granges findoverlaps
8.0 years ago julrodr80 ▴ 30
0
votes
1
reply
1.6k
views
findOverlaps - how to get adjacent ranges?
findOverlaps IRanges
updated 8.1 years ago by ★ 11k • written 8.1 years ago by ▴ 20
0
votes
3
replies
2.0k
views
findOverlaps() error after updating package
GenomicRanges findOverlaps
updated 8.3 years ago by 25k • written 8.3 years ago by ▴ 20
1
vote
4
replies
1.3k
views
pROBLEMS WITH findOverlapPairs
gRANGES iranges findoverlaps
updated 8.3 years ago by 68k • written 8.3 years ago by ▴ 30
2
votes
7
replies
2.7k
views
how to make findOverlaps from genomicAlignments package to consider soft-clipped parts of BWA paired reads in overlap calculation?
genomicalignments findoverlaps clipped read
8.5 years ago • updated 8.4 years ago lovro0 ▴ 10
1
vote
12
replies
2.7k
views
How can I integrate set of compressedList in multiple list into one without duplication?
r iranges findoverlaps IntegerList List
8.8 years ago • updated 8.5 years ago jian_liangli • 0
5
votes
2
replies
1.7k
views
seeking idea for proper output representation for multiple GRanges overlapping
r grangeslist biocparallel findoverlaps
8.8 years ago • updated 8.5 years ago Jurat Shahidin ▴ 80
3
votes
3
replies
1.4k
views
Find hits of subject that start somewhere in the query by using GRanges / IRanges and findOverlap()
IRanges GRanges findoverlaps R
updated 8.8 years ago by ★ 11k • written 8.8 years ago by • 0
3
votes
5
replies
1.9k
views
Extract coordinates of overlapping genomic intervals
genomicranges findoverlaps intersect
updated 8.8 years ago by ★ 13k • written 8.8 years ago by ▴ 110
2
votes
2
replies
1.7k
views
GRanges get hits from (only) antisense strand with findOverlaps().
GRanges findoverlaps antisense
updated 8.8 years ago by ▴ 450 • written 8.8 years ago by • 0
3
votes
9
replies
2.3k
views
find next non-overlapping nth elements of a given region
biomart granges findoverlaps
updated 8.9 years ago by ★ 11k • written 8.9 years ago by ▴ 20
28
votes
43
replies
9.9k
views
Find overlap for more than 2 GRanges object simultaneously (reproducible example is updated) ?
findoverlaps granges
updated 9.1 years ago by 25k • written 9.2 years ago by ▴ 80
0
votes
6
replies
2.2k
views
Is that an efficient way to find the overlapped , upstream and downstream genes for a bunch of genes
genomicranges geneoverlap findoverlaps
updated 9.1 years ago by ★ 11k • written 9.1 years ago by • 0
6
votes
7
replies
2.2k
views
How to implement element-wise-overlaps with iteration for two different bed files in R?
r findoverlaps iterators
updated 9.3 years ago by 16k • written 9.3 years ago by ▴ 80
0
votes
9
replies
3.2k
views
IRanges: reduce(), findOverlaps(), and intersect() by group
iranges findoverlaps intersect group
9.4 years ago pesquivel • 0
0
votes
3
replies
2.0k
views
I want have a score vector of length of grange that is overlapping with other grange.
granges findoverlaps subsetbyoverlaps
updated 9.5 years ago by ★ 11k • written 9.5 years ago by ▴ 50
0
votes
0
replies
1.4k
views
Different amount of overlapping Peaks in ChIPpeakAnno-Package
chippeakanno findoverlaps venn diagram
9.5 years ago N. F. • 0
9
votes
3
replies
5.3k
views
how to extract Granges not overlapping with other ganges?
Granges findoverlaps
updated 9.5 years ago by 68k • written 9.5 years ago by ▴ 50
3
votes
2
replies
2.0k
views
how much positions overlapped for each pair of the pairs obtained by findoverlap.
granges genomicranges findoverlaps subsetbyoverlaps
updated 9.5 years ago by 16k • written 9.5 years ago by ▴ 50
2
votes
5
replies
2.6k
views
Intersecting a Granges and a GRangesList using within
granges grangeslist findoverlaps
updated 9.7 years ago by 16k • written 9.7 years ago by ▴ 150
3
votes
7
replies
2.5k
views
Intersecting a Granges and a GRangesList elementwise
findoverlaps genomicranges
updated 9.7 years ago by 16k • written 9.7 years ago by ▴ 150
1
vote
1
reply
2.0k
views
Using findOverlaps to find only partial overlaps
findoverlaps genomicranges
updated 9.7 years ago by ★ 11k • written 9.7 years ago by ▴ 150
1
vote
1
reply
1.6k
views
Performing findOverlaps when both subject and query are on the order of a million
findoverlaps
updated 10.2 years ago by 16k • written 10.2 years ago by ▴ 30
3
votes
5
replies
3.7k
views
Add Custom Annotations to Multi-Sample VCF with VariantAnnotation() package
variantannotation granges DNAStringSetList findoverlaps Vranges
10.2 years ago summerela • 0
10
votes
8
replies
3.1k
views
Transitive overlaps of GRanges object
granges findOverlaps
updated 10.2 years ago by 16k • written 10.2 years ago by ▴ 40
34 results • Page 1 of 1
Recent ...
Replies
Comment: DiffBind - question on the use of filtered or unfiltered input data by sloperun3az • 0
Your essay was beneficial to me, and I found it to be very useful. Thank you for writing it. You give a wealth of knowledge that is not onl…
Comment: compute_fasta_digest does not match Salmon index hash by sloperun3az • 0
The people who are reading your work are not taken into consideration, even though you appear to have a solid understanding of the subject …
Comment: parameters of filterByExpr by Paul Harrison ▴ 110
It might be worth trying limma-voom (or limma-trend) instead of a GLM based method. In our experience these are less prone to this problem.…
Comment: limma::voom vs edgeR::voomLmFit - when to use? by Gordon Smyth 52k
voomLmFit() is in edgeR instead of limma because it needs to call edgeR::glmFit() internally to determine which of the zero observations al…
Comment: limma::voom vs edgeR::voomLmFit - when to use? by Geoff • 0
Just wondering--why was this function put into `edgeR` rather than `limma`? Maybe a bit technical, but it is a little confusing from an out…
Votes
Comment: Check removeBatchEffect effectiveness
Answer: Check removeBatchEffect effectiveness
A: what should I do with many zero counts from Salmon quantification
Comment: parameters of filterByExpr
GAlignments Cigar to GRanges
Awards • All
Scholar to James W. MacDonald 68k
Popular Question to Gordon Smyth 52k
Scholar to Hervé Pagès 16k
Popular Question to Bine ▴ 50
Popular Question to RobKo ▴ 10
Locations • All
Seattle, WA, United States, 28 minutes ago
Denmark, 31 minutes ago
United States, 36 minutes ago
Barcelona, Spain, 37 minutes ago
United States, 54 minutes ago
Traffic: 965 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6