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Showing :
rtracklayer
•
reset
0
votes
5
replies
648
views
Help using rtracklayer for gene ID extraction
rtracklayer
written 10 weeks ago by
Aichatou
• 0
0
votes
4
replies
490
views
rtracklayer accessing UCSC data table not working
UCSC
rtracklayer
getTable
5 months ago • updated 4 months ago
Andreas.Herbst
• 0
1
vote
2
replies
579
views
supportedOrganisms() in goseq producing Error in names(trackIds)
goseq
Bioconductor
rtracklayer
11 months ago
thomas
• 0
0
votes
4
replies
1.5k
views
Installation problem of rtracklayer on Bioconductor version 3.19
newpackage
rtracklayer
updated 12 months ago by
shepherl
4.1k • written 12 months ago by
Lucille
• 0
9
votes
38
replies
8.7k
views
manipulate bedpe format files
GRanges
bedpe
structural variants
rtracklayer
written 9.0 years ago by
tangming2005
▴ 200
2
votes
7
replies
1.0k
views
distanceToNearest
rtracklayer
ranges
distanceToNearest
13 months ago
robjohn70000
• 0
1
vote
0
replies
807
views
Gviz : UcscTrack
rtracklayer
UCSC
Gviz
15 months ago
yujin
▴ 10
1
vote
3
replies
908
views
Error in Gviz (actually, rtracklayer) | IdeogramTrack
rtracklayer
Gviz
updated 15 months ago by
Hervé Pagès
16k • written 15 months ago by
yujin
▴ 10
1
vote
1
reply
986
views
rtracklayer error for browserSession UCSC
rtracklayer
updated 16 months ago by
Hervé Pagès
16k • written 16 months ago by
Anna
▴ 10
0
votes
18
replies
3.2k
views
problem installing ENmix package
ENmix
Bioconductor
rtracklayer
written 4.0 years ago by
lea
• 0
0
votes
0
replies
1.1k
views
Problem with loading rtracklayer
rtracklayer
updated 2.0 years ago by
shepherl
4.1k • written 2.0 years ago by
jiahe.janet
• 0
0
votes
0
replies
673
views
rtracklayer ignores ranges argument
rtracklayer
2.1 years ago
Kyle
• 0
0
votes
0
replies
888
views
Error importing UCSC phastCons annotation in BigWig format
GenomicRanges
rtracklayer
2.1 years ago
Delta._.43
▴ 20
2
votes
3
replies
2.5k
views
Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
SingleCellMultiModal
ensembldb
rtracklayer
Annotation
updated 2.1 years ago by
rbj
• 0 • written 2.2 years ago by
Jake
▴ 10
3
votes
4
replies
1.7k
views
Convert a bed file to bigBed with rtracklayer
bed
bigBed
rtracklayer
ucsc
2.3 years ago
L
▴ 50
1
vote
3
replies
1.4k
views
rtacklayer::import.bed silently adds 1 to the start coordinates
rtracklayer
updated 2.4 years ago by
ATpoint
★ 4.7k • written 2.4 years ago by
Mikhail Dozmorov
▴ 30
2
votes
2
replies
1.0k
views
[BigWigFile] import as RLE vs default and length comparaison
BSgenome.Hsapiens.UCSC.hg19
rtracklayer
AnnotationHub
2.5 years ago
Lenny186
• 0
0
votes
1
reply
848
views
rtracklayer import only subset of ranges
rtracklayer
updated 2.5 years ago by
shepherl
4.1k • written 2.5 years ago by
Jake
▴ 90
4
votes
5
replies
7.7k
views
Convert an R data.frame to a bed file in R
rtracklayer
R
bed
updated 2.1 years ago by
Walters
• 0 • written 2.6 years ago by
L
▴ 50
0
votes
8
replies
2.5k
views
rtracklayer bigWig import fails with "'ranges' must have the length of the object to construct"
rtracklayer
updated 2.3 years ago by
Ruoyun
• 0 • written 2.6 years ago by
bonob
• 0
0
votes
1
reply
1.4k
views
Can´t install GenomicRanges and rtracklayer
rtracklayer
GenomicRanges
Installation
updated 2.6 years ago by
James W. MacDonald
68k • written 2.6 years ago by
Johanna
• 0
1
vote
2
replies
2.1k
views
Extracting Score/Coverage From GRange Object
IRanges
rtracklayer
GenomicRanges
2.8 years ago
vanbelj
▴ 30
0
votes
1
reply
891
views
Rtracklayer
rtracklayer
RNASeq
gff
updated 2.9 years ago by
James W. MacDonald
68k • written 2.9 years ago by
edusbioinfo
• 0
1
vote
4
replies
1.5k
views
seqinfo got changed after `library(rtracklayer)`
rtracklayer
GenomeInfoDb
3.2 years ago
Ge Tan
▴ 20
0
votes
2
replies
2.4k
views
R/Rstudio: using rtracklayer to import bigwig files from http works with MacOS but not with Windows
import.bw
rtracklayer
Windows
http
3.2 years ago
sla
• 0
0
votes
4
replies
1.9k
views
rtracklayer can't access hg38 on UCSC?
rtracklayer
Visualization
updated 3.3 years ago by
Hervé Pagès
16k • written 3.3 years ago by
chase.mateusiak
• 0
0
votes
0
replies
799
views
Bug in rtracklayer
rtracklayer
3.3 years ago
You
• 0
2
votes
4
replies
1.4k
views
default behaviour of import.bw
import.bw
rtracklayer
3.3 years ago
Yixin
• 0
0
votes
2
replies
1.4k
views
Failed to get promoters using promoters() in R 4.0.3.
promoter
GenomicRanges
rtracklayer
GRanges
3.5 years ago
Arslan
• 0
0
votes
0
replies
803
views
rtracklayer v 1.53.1 refuses to load xz-compressed files.
rtracklayer
3.5 years ago
Charles
• 0
2
votes
3
replies
2.2k
views
Importing a bed file
rtracklayer
3.7 years ago
Skylar
• 0
0
votes
1
reply
1.4k
views
Bug in rtracklayer liftOver function
rtracklayer
updated 3.8 years ago by
James W. MacDonald
68k • written 3.8 years ago by
nick.shrine
• 0
2
votes
3
replies
2.1k
views
liftOver bug, reproducible
liftOver
rtracklayer
updated 4.0 years ago by
James W. MacDonald
68k • written 4.0 years ago by
Mikhail Dozmorov
▴ 30
5
votes
5
replies
4.4k
views
Issues with installation status of R package rtracklayer
rtracklayer
Bioconductor
updated 3.0 years ago by
shepherl
4.1k • written 4.1 years ago by
svlachavas
▴ 840
1
vote
5
replies
5.5k
views
RStudio vs R: using rtracklayer to import bigwig files from http works in R but not in RStudio.
import.bw
rtracklayer
http
RStudio
updated 4.2 years ago by
Michael Lawrence
★ 11k • written 4.2 years ago by
Søren
• 0
2
votes
0
replies
1.3k
views
How to liftOver Paired BED (bedpe) data
rtracklayer
4.2 years ago
Mikhail Dozmorov
▴ 30
9
votes
9
replies
6.1k
views
Importing a BED file with floating point scores?
rtracklayer
bed
updated 4.0 years ago by
merv
▴ 150 • written 8.9 years ago by
Ryan C. Thompson
★ 7.9k
0
votes
0
replies
1.0k
views
Can you compute summary stats of coverage directly when importing using rtracklayer?
Coverage
rtracklayer
4.3 years ago
David
• 0
2
votes
2
replies
1.6k
views
How to access metadata of GAlignments objects
rtracklayer
Rsamtools
GAlignments
GRanges
metadata
updated 4.8 years ago by
Hervé Pagès
16k • written 4.8 years ago by
Robert
▴ 10
1
vote
1
reply
2.9k
views
Rtracklayer exporting Granges object as bigwig error: Features cannot overlap
rtracklayer
genomicranges
granges
updated 4.9 years ago by
Michael Lawrence
★ 11k • written 4.9 years ago by
ssabri
▴ 20
7
votes
16
replies
4.2k
views
How to extract phastcons score for all protein coding genes and lncRNAs using GenomicScores?
genomicscores
granges
phastCons100way.UCSC.hg38
r
rtracklayer
updated 3 months ago by
rania.alanany
• 0 • written 4.9 years ago by
Biologist
▴ 120
2
votes
6
replies
2.8k
views
rtracklayer: error in importing bigwig file in r in windows
rtracklayer
bigwig file
updated 3.4 years ago by
Leonardo Collado Torres
★ 1.1k • written 5.0 years ago by
mzwanelen
▴ 10
0
votes
1
reply
1.0k
views
getting snp and restriction Enzyme site from ucsc genome browswer
rtracklayer
updated 5.0 years ago by
Michael Lawrence
★ 11k • written 5.0 years ago by
prabin.dm
• 0
1
vote
1
reply
867
views
Rtracklayer fails to export TxDb as GFF3 without CDS
rtracklayer
updated 5.0 years ago by
Michael Lawrence
★ 11k • written 5.0 years ago by
alexis.weinreb
• 0
0
votes
0
replies
1.4k
views
Rsamtools / rtracklayer creating csi index for BAM files
rsamtools
rtracklayer
5.3 years ago • updated 5.2 years ago
ATpoint
★ 4.7k
1
vote
2
replies
1.1k
views
rtracklayer::export empty score
rtracklayer
updated 5.3 years ago by
Michael Lawrence
★ 11k • written 5.3 years ago by
dinocolmillo
• 0
0
votes
4
replies
2.0k
views
IRanges: solving row 5: range cannot be determined from the supplied arguments (too many NAs)
IRanges
rtracklayer
updated 5.3 years ago by
James W. MacDonald
68k • written 5.3 years ago by
jovel_juan
▴ 30
0
votes
0
replies
916
views
DMDeepm6A: solve_user_SEW0", start, end, width, PACKAGE = "IRanges
rtracklayer
IRanges
DMDeepm6A
5.3 years ago
jovel_juan
▴ 30
2
votes
3
replies
1.8k
views
"Packages required but not available." rtracklayer in OSX is not available to CRAN, resulting in errors for downstream dependencies.
GenomicRanges
rtracklayer
VariantAnnotation
S4Vectors
SummarizedExperiment
updated 5.6 years ago by
Steve Lianoglou
★ 13k • written 5.6 years ago by
james.dalgleish
▴ 30
0
votes
1
reply
1.2k
views
rtracklayer import bigwig error
rtracklayer
updated 2.1 years ago by
Delta._.43
▴ 20 • written 5.6 years ago by
ribioinfo
▴ 100
50 results • Page
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Hi JK Kim, I'm having a problem similar to the one you reported. Could you please tell me how you solved this problem? Thanks
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Thank you
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Without providing a self-contained example, nobody can tell you if/where you went wrong. Since you get a KEGG pathway with some of the gene…
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We don't have a test of differential variance but other Bioconductor packages can, check similar posts (even on the right side bar) or use …
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