Showing : rtracklayer • reset
0
votes
5
replies
2.9k
views
bigBed support in rtracklayer
rtracklayer rtracklayer
updated 9.7 years ago by ▴ 30 • written 13.3 years ago by ★ 4.2k
2
votes
3
replies
2.9k
views
liftOver bug, reproducible
liftOver rtracklayer
updated 5.1 years ago by 68k • written 5.1 years ago by ▴ 30
2
votes
3
replies
2.9k
views
Importing a bed file
rtracklayer
4.8 years ago Skylar • 0
0
votes
2
replies
2.9k
views
Exporting a GenomicRanges object as GTF/GFF file
genomicranges rtracklayer gtf gff export
8.7 years ago rubi ▴ 110
1
vote
3
replies
2.8k
views
views on Rle using GRanges object
RNASeq Coverage GO Cancer bridge rtracklayer IRanges RNASeq Coverage GO Cancer bridge
updated 11.9 years ago by 16k • written 11.9 years ago by ★ 11k
0
votes
6
replies
2.8k
views
Add columns to granges object that sum score around range
R Grang r granges rtracklayer
updated 8.2 years ago by ★ 11k • written 8.2 years ago by ▴ 20
0
votes
6
replies
2.7k
views
Advice on reading big BED/BAM and ChIP-seq quality control
GO rtracklayer Rsamtools GO rtracklayer Rsamtools
updated 12.8 years ago by ▴ 350 • written 12.8 years ago by ▴ 240
0
votes
0
replies
2.7k
views
How to plot gene on their chromosome?
Annotation Cancer geneplotter idiogram rtracklayer Annotation Cancer geneplotter idiogram
16.8 years ago Martin Morgan 25k
0
votes
3
replies
2.7k
views
browseGenome rtracklayer, save / export UCSC genome browser image e.g. as pdf
rtracklayer browseGenome save file image UCSC
updated 9.0 years ago by ▴ 10 • written 10.9 years ago by ▴ 60
3
votes
6
replies
2.7k
views
Issue with UCSC and rtracklayer: 'names' attribute [210] must be the same length as the vector [209]
rtracklayer ucsc ensgene
updated 7.8 years ago by ▴ 10 • written 7.8 years ago by • 0
3
votes
4
replies
2.7k
views
rtracklayer import.gff3 function no longer working in R 3.4
rtracklayer import.gff3 gff
updated 8.9 years ago by 25k • written 8.9 years ago by ▴ 180
0
votes
6
replies
2.6k
views
rtracklayer issue: Tracks don't show up
rtracklayer bug session
updated 10.9 years ago by ★ 11k • written 10.9 years ago by • 0
0
votes
4
replies
2.6k
views
Installation problem of rtracklayer on Bioconductor version 3.19
newpackage rtracklayer
updated 2.0 years ago by 4.3k • written 2.0 years ago by • 0
1
vote
2
replies
2.5k
views
Extracting Score/Coverage From GRange Object
IRanges rtracklayer GenomicRanges
3.9 years ago vanbelj ▴ 30
0
votes
3
replies
2.5k
views
Accessing the BigWig files from the web
rtracklayer
9.0 years ago Mustafa ABUELQUMSAN • 0
0
votes
6
replies
2.5k
views
IdeogramTrack and bigWig file errors in Gviz
ChIPSeq GO rtracklayer CAMERA chipseq Gviz ChIPSeq GO rtracklayer CAMERA chipseq Gviz
updated 12.8 years ago by ▴ 750 • written 12.9 years ago by ★ 13k
0
votes
0
replies
2.5k
views
BioStrings for current R: RE: BSgenomeForge seed file - seqnames field
GO Cancer BSgenome OrganismDb SNPlocs TranscriptDb Biostrings BSgenome rtracklayer MEDIPS
12.2 years ago Hervé Pagès 16k
0
votes
0
replies
2.5k
views
problem reading bigwig files with rtracklayer from Ensembl mitochondrion chromosome name
Coverage Annotation rtracklayer Coverage Annotation rtracklayer
11.7 years ago Marco Blanchette ▴ 220
0
votes
4
replies
2.5k
views
Gviz IdeogramTrack fails with Error: failed to load HTTP resource
gviz gviz-package rtracklayer http
8.1 years ago enricoferrero ▴ 680
0
votes
4
replies
2.4k
views
rtracklayer can't access hg38 on UCSC?
rtracklayer Visualization
updated 4.3 years ago by 16k • written 4.3 years ago by • 0
2
votes
3
replies
2.4k
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 6.6 years ago by ★ 13k • written 6.6 years ago by ▴ 30
0
votes
1
reply
2.4k
views
rtracklayer bed import
Annotation rtracklayer Annotation rtracklayer
updated 16.3 years ago by ▴ 620 • written 16.3 years ago by ▴ 170
0
votes
3
replies
2.4k
views
compilation error for rtracklayer
rtracklayer rtracklayer
updated 14.3 years ago by ★ 11k • written 14.3 years ago by ▴ 500
0
votes
4
replies
2.3k
views
IRanges: solving row 5: range cannot be determined from the supplied arguments (too many NAs)
IRanges rtracklayer
updated 6.3 years ago by 68k • written 6.3 years ago by ▴ 30
0
votes
0
replies
2.3k
views
IdeogramTrack and bigWig file errors in Gviz
GO Network rtracklayer CAMERA Gviz GO Network rtracklayer CAMERA Gviz
11.9 years ago Robert Ivanek ▴ 750
0
votes
2
replies
2.3k
views
liftOver function in rtracklayer package is not working
liftover rtracklayer
updated 8.6 years ago by ★ 11k • written 8.6 years ago by • 0
3
votes
4
replies
2.3k
views
Convert a bed file to bigBed with rtracklayer
bed bigBed rtracklayer ucsc
3.3 years ago L ▴ 50
0
votes
5
replies
2.3k
views
BED15 format for rtracklayer
Microarray Visualization rtracklayer Microarray Visualization rtracklayer
updated 16.6 years ago by ▴ 620 • written 16.6 years ago by ▴ 500
1
vote
6
replies
2.3k
views
"rtracklayer" compilation error
rtracklayer
updated 9.7 years ago by ★ 6.6k • written 9.7 years ago by ▴ 120
0
votes
5
replies
2.3k
views
How to plot microRNA chromosome location
miRNA ideogram GenomeGraphs rtracklayer microRNA miRNA ideogram GenomeGraphs rtracklayer
updated 17.3 years ago by ▴ 40 • written 17.3 years ago by ▴ 620
1
vote
3
replies
2.3k
views
rtacklayer::import.bed silently adds 1 to the start coordinates
rtracklayer
updated 3.5 years ago by ★ 5.0k • written 3.5 years ago by ▴ 30
0
votes
0
replies
2.2k
views
Gviz question
Visualization rtracklayer Gviz Visualization rtracklayer Gviz
14.0 years ago florian.hahne@novartis.com ★ 1.6k
0
votes
5
replies
2.2k
views
Finding my un-counted reads
Sequencing rtracklayer ShortRead GenomicRanges Sequencing rtracklayer ShortRead
updated 12.5 years ago by ★ 6.8k • written 12.5 years ago by ▴ 300
0
votes
4
replies
2.2k
views
Error in parseURI("") : cannot parse URI (rtracklayer package)
rtracklayer
10.0 years ago Qiang ▴ 80
0
votes
7
replies
2.2k
views
read gz compressed wig files?
Cancer rtracklayer Cancer rtracklayer
updated 14.9 years ago by ★ 13k • written 14.9 years ago by ▴ 50
0
votes
4
replies
2.2k
views
rtracklayer and UCSC
rtracklayer genomes rtracklayer genomes
updated 16.8 years ago by ▴ 620 • written 16.8 years ago by ★ 6.5k
0
votes
4
replies
2.2k
views
Get genomic sequences
biomaRt rtracklayer biomaRt rtracklayer
updated 16.1 years ago by ▴ 970 • written 16.1 years ago by ▴ 50
0
votes
6
replies
2.2k
views
GenomicFeatures: makeTranscriptDbFromUCSC on "refGene" supported?
rtracklayer GenomicFeatures rtracklayer GenomicFeatures
updated 15.6 years ago by 6.7k • written 15.6 years ago by ▴ 50
0
votes
4
replies
2.1k
views
browserSession for Arabidopsis
rtracklayer Granges spliceR
updated 10.6 years ago by ★ 11k • written 10.6 years ago by • 0
0
votes
1
reply
2.1k
views
rtracklayer gff import
rtracklayer rtracklayer
updated 14.8 years ago by ★ 11k • written 14.8 years ago by ▴ 110
0
votes
3
replies
2.1k
views
rtracklayer v1.30.0 can no longer import gff files
rtracklayer import.gff3 bug
updated 10.4 years ago by 16k • written 10.4 years ago by ★ 2.0k
0
votes
3
replies
2.1k
views
browseGenome with Shiny
rtracklayer browsegenome shiny
updated 7.4 years ago by ★ 11k • written 7.4 years ago by • 0
0
votes
6
replies
2.1k
views
rtracklayer: Problems running vignette
rtracklayer rtracklayer
updated 16.8 years ago by ▴ 620 • written 16.8 years ago by ▴ 150
0
votes
6
replies
2.1k
views
load failed for 'Rlibstree'
hgu133plus2 rtracklayer hgu133plus2 rtracklayer
updated 15.9 years ago by ★ 7.4k • written 15.9 years ago by ★ 1.1k
0
votes
7
replies
2.1k
views
export Views of Rle in rtracklayer
Coverage rtracklayer Coverage rtracklayer
updated 14.3 years ago by ★ 11k • written 14.3 years ago by ▴ 190
0
votes
1
reply
2.0k
views
Some particulars about rtracklayer::liftOver
Cancer rtracklayer Cancer rtracklayer
updated 13.9 years ago by ★ 11k • written 13.9 years ago by ★ 13k
3
votes
3
replies
2.0k
views
Bug in rtracklayer::import of amino acid fasta sequences
rtracklayer fasta import Biostrings
updated 7.1 years ago by ★ 11k • written 7.1 years ago by ▴ 120
0
votes
0
replies
2.0k
views
GenomicFeatures makeTranscriptDbFromUCSC on refGene supported?
Visualization rtracklayer GenomicFeatures Visualization rtracklayer GenomicFeatures
15.6 years ago Erik van den Akker ▴ 50
0
votes
7
replies
2.0k
views
rtracklayer cannot export empty BED file
rtracklayer bed genomicranges
updated 7.3 years ago by ★ 11k • written 7.3 years ago by ▴ 100
0
votes
4
replies
2.0k
views
rtracklayer issue (getTable)
rtracklayer rtracklayer
updated 16.4 years ago by ▴ 620 • written 16.4 years ago by ★ 1.1k
262 results • Page 2 of 6
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Answer: Unable to find ENTREZ IDs by James W. MacDonald 68k
Those are the 'symbols', and are a concatenation of LOC and the NCBI Gene ID (what used to be called an Entrez Gene ID). As an example:http…
Answer: Inconsistencies between accessor functions for TxDb databases with selected seql by a2a2hd42aa • 0
Technical inconsistencies in database accessors can disrupt your workflow, but finding a reliable source to download online mobile games sh…
Comment: Can sample-level weights be used when analysing GSVA scores in limma? by A.Barden ▴ 20
Thanks both for this useful information.
Comment: Reproducibility of code in various Bioconductor versions by Gordon Smyth 53k
SNPlocs.Hsapiens.dbSNP155.GRCh38 is available for download from the same location as always. It has not changed since Bioc 3.20: Presumabl…
Comment: Changing multiple display parameters of a specific exon in GeneRegionTrack by a2a2hd42aa • 0
Similarly, for structural complexity in the [He777 Game][1] APK, having precise control over every detail is what makes a high-performance …
Votes
Do I map probes to gene symbols BEFORE or AFTER differentially expressed gene analysis?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Comment: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Issue loading and downloading Bioconductor 3.22 packages after update
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