Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
Genomicranges
•
reset
0
votes
0
replies
103
views
News:
RNAseq data analysis with R/Bioconductor (4-15 November)
DESeq2
GenomicRanges
25 days ago
info
▴ 10
3
votes
2
replies
303
views
ISO a solution to rank-order introns by transcript
GenomicRanges
GenomicFeatures
updated 8 weeks ago by
James W. MacDonald
67k • written 8 weeks ago by
mat149
▴ 80
0
votes
0
replies
240
views
hichip fragments extraction chip seq
ChIPSeqData
interact
GenomicRanges
HiC
3 months ago
user_bioinfo
• 0
2
votes
1
reply
332
views
Trim/Filter out-of-bounds GRanges
GenomicRanges
updated 6 months ago by
Michael Love
43k • written 6 months ago by
mat149
▴ 80
0
votes
0
replies
359
views
Using Granges to find overlapping pairs at exactly 10kb distance
genomeIntervals
GenomicRanges
8 months ago
gshweta95
• 0
0
votes
0
replies
406
views
ISO statistical test for obs-exp A,T,C,G counts by genomic range/position
GenomicRanges
9 months ago
mat149
▴ 80
2
votes
1
reply
549
views
Need Help w/ Subset on GRangesList
GenomicRange
GenomicRanges
9 months ago
mat149
▴ 80
0
votes
2
replies
1.0k
views
GenomicRanges coult not be loaded after R upgrade
DESeq2
Bioconductor
GenomicRanges
updated 19 months ago by
Virginie
• 0 • written 19 months ago by
gs12
• 0
3
votes
4
replies
1.3k
views
Error with importFrom and GenomicRanges in NAMESPACE
GenomicRanges
IRanges
updated 20 months ago by
Hervé Pagès
16k • written 20 months ago by
jbendik
• 0
0
votes
1
reply
853
views
Error printing a CompressedGRangesList
GenomicRanges
23 months ago • updated 21 months ago
Lluís Revilla Sancho
▴ 760
0
votes
0
replies
835
views
Error importing UCSC phastCons annotation in BigWig format
GenomicRanges
rtracklayer
22 months ago
Delta._.43
▴ 20
4
votes
4
replies
1.8k
views
Flank GenomicRanges on Both Sides
GenomicRanges
updated 22 months ago by
James W. MacDonald
67k • written 22 months ago by
Dario Strbenac
★ 1.5k
3
votes
1
reply
896
views
Find ranges that are shared by 80% or more of 10 GRanges objects
Granges
GenomicRanges
updated 23 months ago by
Michael Love
43k • written 23 months ago by
d.s.h.andel-3
• 0
0
votes
2
replies
1.6k
views
GenomicRanges method to make the total width of ranges a certain value?
GenomicRanges
updated 2.0 years ago by
Malcolm Cook
★ 1.6k • written 2.1 years ago by
mike-zx
• 0
2
votes
2
replies
2.5k
views
getSeq failing with DNAStringSet and GRanges
ORFik
Bioconductor
GenomicRanges
Biostrings
BSgenome
2.2 years ago • updated 2.1 years ago
Mog
• 0
0
votes
0
replies
722
views
nearest and nearestKNeighbors with k=1 produce different results
GenomicRanges
2.4 years ago
Simon Coetzee
▴ 50
2
votes
3
replies
2.4k
views
Combine GRanges(List) to a single GRanges with unified breakpoints
GenomicRanges
plyranges
2.4 years ago
Rodrigo
• 0
0
votes
1
reply
1.3k
views
Can´t install GenomicRanges and rtracklayer
rtracklayer
GenomicRanges
Installation
updated 2.4 years ago by
James W. MacDonald
67k • written 2.4 years ago by
Johanna
• 0
3
votes
2
replies
1.7k
views
toGRanges help!
GenomicRanges
toGRanges
Bioconductor
2.5 years ago
samantha.haque
• 0
1
vote
2
replies
1.9k
views
Extracting Score/Coverage From GRange Object
IRanges
rtracklayer
GenomicRanges
2.6 years ago
vanbelj
▴ 30
0
votes
1
reply
1.3k
views
finding overlap using GenomicRanges with two data sets specifying minoverlap Function
Biostrings
GenomicRanges
updated 2.6 years ago by
Basti
▴ 780 • written 2.6 years ago by
MANYA_BIOINFO
• 0
1
vote
0
replies
965
views
How about a getSeq() method for GRanges ?
GenomicRanges
BSGenome
2.6 years ago
Charles Plessy
▴ 180
0
votes
2
replies
4.7k
views
Gene body coverage plot
plot
gene
GenomicRanges
Coverage
R
updated 2.7 years ago by
kent.riemondy
▴ 20 • written 2.7 years ago by
svenbioinf
• 0
0
votes
6
replies
1.8k
views
Error: duplicate row.names
GenomicRanges
methylKit
S4Vectors
updated 2.7 years ago by
James W. MacDonald
67k • written 2.7 years ago by
hasche
• 0
0
votes
0
replies
933
views
Annotating copy number alterations per sample using CNVRanger R package and return of duplicated gene symbols
CopyNumberVariation
CNVRanger
GenomicRanges
2.8 years ago
svlachavas
▴ 830
6
votes
2
replies
1.5k
views
strand-aware GRanges shift
GenomicRanges
updated 2.8 years ago by
Malcolm Cook
★ 1.6k • written 2.8 years ago by
gene_bioconductor
▴ 10
9
votes
9
replies
4.0k
views
Subset GRanges by intersection
findOverlaps
GPos
GenomicRanges
subsetByOverlaps
updated 2.9 years ago by
James W. MacDonald
67k • written 2.9 years ago by
Robert
▴ 10
3
votes
5
replies
2.3k
views
Splitting a TxDB or GRanges by Chromosome
GenomicRanges
split
chromosome
TxDb
updated 2.9 years ago by
Hervé Pagès
16k • written 2.9 years ago by
jon.klonowski
▴ 40
4
votes
1
reply
921
views
`promoters()` fails on `GPos` objects
GenomicRanges
updated 3.0 years ago by
Hervé Pagès
16k • written 3.0 years ago by
Charles Plessy
▴ 180
1
vote
3
replies
6.5k
views
Understanding findoverlaps function in GenomicRanges
GenomicRanges
genomicra
updated 3.1 years ago by
James W. MacDonald
67k • written 3.1 years ago by
Alexandre
▴ 10
2
votes
4
replies
3.7k
views
How to simply change chromosome names of a GRanges object?
genomicrang
GenomicRanges
updated 2.9 years ago by
Hervé Pagès
16k • written 3.1 years ago by
changxu.fan
▴ 20
0
votes
2
replies
1.4k
views
Handling missing seqlenghts
GenomicRanges
3.1 years ago
Charles Plessy
▴ 180
4
votes
2
replies
1.4k
views
GenomicRanges::union fails on R devel
devel
GenomicRanges
3.2 years ago
Guillaume Devailly
▴ 60
5
votes
2
replies
1.3k
views
How to build a GRangesList where each GRanges element is a CDS coordinate of gene transcripts?
GenomicRanges
sesame
sesameData
GenomicFeatures
3.2 years ago
Pratik Mehta
▴ 10
2
votes
2
replies
1.5k
views
How to subset GRangesList by seqnames
GenomicRanges
updated 3.2 years ago by
James W. MacDonald
67k • written 3.2 years ago by
Junghoon
▴ 10
3
votes
2
replies
1.7k
views
`GenomicRanges` cheat sheet
GenomicRanges
3.2 years ago
chirag.parsania
▴ 10
0
votes
2
replies
1.3k
views
Failed to get promoters using promoters() in R 4.0.3.
promoter
GenomicRanges
rtracklayer
GRanges
3.2 years ago
Arslan
• 0
0
votes
2
replies
1.2k
views
GRanges::distanceToNearest does not return distance to nearest
GenomicRanges
Genomic
3.3 years ago
Daniel Cameron
▴ 40
2
votes
4
replies
1.4k
views
Unique GPos taking into account mcols
GenomicRanges
unique
GPos
3.3 years ago • updated 3.2 years ago
maltethodberg
▴ 180
0
votes
1
reply
749
views
How to overlap granges objects by gene name
GenomicRanges
updated 3.4 years ago by
James W. MacDonald
67k • written 3.4 years ago by
grr4006
• 0
0
votes
5
replies
3.6k
views
Grange object subsetting using seqnames
Seqnames
makeGRangesFromDataFrame
GRanges
Subsetting
GenomicRanges
3.4 years ago
rtrivedi1
▴ 10
0
votes
0
replies
802
views
Arithmetic Operations Between GRanges' Scores
GenomicRanges
3.4 years ago
Dario Strbenac
★ 1.5k
3
votes
2
replies
994
views
Should I create a new class or using Common Classes
GenomicRanges
updated 3.5 years ago by
Hervé Pagès
16k • written 3.5 years ago by
Guandong Shang
▴ 40
0
votes
0
replies
861
views
Using genomicRanges / plyranges to calculate score of peaks within intervals
plyranges
GenomicRanges
3.6 years ago
alorsonmethyle
• 0
1
vote
4
replies
1.8k
views
IRanges::findOverlapPairs cannot take inputs if they are too large
IRanges
GenomicRanges
3.6 years ago • updated 3.5 years ago
Yixin
• 0
11
votes
13
replies
5.0k
views
How to retrieve genomic coordinates for a list of entrezID and their respective gene names
genomic
AnnotationHub
GenomicRanges
org.Hs.eg.db
4.0 years ago • updated 3.8 years ago
rohitsatyam102
▴ 20
1
vote
1
reply
1.3k
views
cannot create GRanges object anymore
GenomicR
GenomicRanges
updated 3.9 years ago by
James W. MacDonald
67k • written 3.9 years ago by
zhezhen
• 0
1
vote
1
reply
1.1k
views
Average coverage between multiple samples
GenomicRanges
updated 3.9 years ago by
Michael Lawrence
★ 11k • written 3.9 years ago by
Jake
▴ 90
20
votes
10
replies
20k
views
How do I merge a list of GRanges?
GenomicRanges
updated 2.8 years ago by
jon.klonowski
▴ 40 • written 8.4 years ago by
endrebak85
▴ 40
1
vote
1
reply
1.6k
views
GenomicRanges equivalent to bedtools cluster
IRanges
GenomicRanges
updated 4.0 years ago by
James W. MacDonald
67k • written 4.0 years ago by
kalamari
• 0
50 results • Page
1 of 1
Recent ...
Replies
Answer: Deseq2 res Function
by
Michael Love
43k
> Does this mean the young and KO groups were numerators and denominators in the analysis, respectively? Read over the vignette and work…
Answer: ANOVA like approach of edgeR
by
Gordon Smyth
51k
You need to clarify whether interactions are present for the two factors in your study. In the two factors do not interact, then the code y…
Answer: Create Illmina bead summary data
by
Gordon Smyth
51k
GenomeStudio produces IDAT files that you can read using the `read.idat` function in limma. That is the recommended way to read GenomeStudi…
Comment: Help with RSEM counts: do I transpose matrix?
by
NB
• 0
OK thank you.
Comment: Help with RSEM counts: do I transpose matrix?
by
James W. MacDonald
67k
You can ask here, but please read the `DESeq2` vignette first, which should answer most questions.
Votes
Answer: Deseq2 res Function
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification
Answer: ANOVA like approach of edgeR
Answer: ANOVA like approach of edgeR
Comment: ANOVA like approach of edgeR
Awards
• All
Popular Question
to
Gordon Smyth
51k
Popular Question
to
sap275
▴ 10
Popular Question
to
mhem
▴ 10
Popular Question
to
Anna
▴ 20
Scholar
to
Haibo Liu
▴ 20
Locations
• All
Egypt,
9 minutes ago
UPF, Barcelona, Spain,
1 hour ago
United States,
1 hour ago
France,
1 hour ago
Russia,
2 hours ago
Traffic: 521 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