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201
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News:
Legacy Bioconductor Installation
Installation
Bioconductor
3 months ago
shepherl
4.0k
0
votes
1
reply
907
views
DeSeq2 and GenomicRange installation possible conflict with bioconductor version 3.16?
DESeq2
version3.16
installation
bioconductor
GenomicRange
updated 21 months ago by
James W. MacDonald
67k • written 21 months ago by
hong
• 0
0
votes
1
reply
754
views
Regarding Installation of GEOquery
BiocManager
installation
GEOquery
updated 2.1 years ago by
Basti
▴ 780 • written 2.1 years ago by
surinder.chd90
• 0
0
votes
3
replies
3.4k
views
Can't Install ensembldb and EnsDb.Hsapiens.v86
installation
EnsDb.Hsapiens.v86
Bioconductor
package
ensembldb
2.2 years ago
elmfinds
• 0
0
votes
1
reply
1.2k
views
Can´t install GenomicRanges and rtracklayer
rtracklayer
GenomicRanges
Installation
updated 2.2 years ago by
James W. MacDonald
67k • written 2.2 years ago by
Johanna
• 0
0
votes
2
replies
1.3k
views
cannot install various functions in R
GRanges
packages
installation
updated 2.4 years ago by
shepherl
4.0k • written 2.4 years ago by
Eli
• 0
0
votes
3
replies
2.1k
views
More Bioconductor Package Installation Problems
package
symlinks
directories
installation
Dropbox
updated 2.4 years ago by
Hervé Pagès
16k • written 2.4 years ago by
jose
▴ 10
1
vote
6
replies
2.7k
views
Bioconductor installation problems
packages
installation
Bioconductor
updating
updated 2.5 years ago by
Marcel Ramos
700 • written 2.5 years ago by
jose
▴ 10
1
vote
1
reply
1.1k
views
list installed packages
Installation
updated 2.6 years ago by
James W. MacDonald
67k • written 2.6 years ago by
dmahoney
• 0
11
votes
11
replies
16k
views
cannot install edgeR on M1 Mac
apple
m1
installation
silicon
updated 2.7 years ago by
Gordon Smyth
51k • written 3.2 years ago by
Brian
▴ 90
1
vote
5
replies
3.6k
views
Problem with DESeq2 installation using in R 1.4.1717
DESeq2
Problem
installation
with
updated 3.2 years ago by
Lluís Revilla Sancho
▴ 730 • written 3.2 years ago by
Nahid
• 0
1
vote
1
reply
3.8k
views
Installing hdf5r without admin access
hdf5r
installation
updated 3.2 years ago by
Hervé Pagès
16k • written 3.2 years ago by
snp31
• 0
0
votes
1
reply
3.4k
views
BiocManager.rdb is corrupt
Installation
updated 3.2 years ago by
James W. MacDonald
67k • written 3.2 years ago by
gray
• 0
2
votes
2
replies
3.4k
views
Unable to install packages on MacOS
macos
installation
updated 3.3 years ago by
Kevin Blighe
★ 4.0k • written 3.3 years ago by
Joe
▴ 10
2
votes
2
replies
2.0k
views
loading scran package
scran
installation
3.6 years ago
TJ
• 0
2
votes
2
replies
1.3k
views
Feature request: Freezing Bioconductor packages to a specific date
installation
time machine
mran
rspm
updated 4.0 years ago by
Martin Morgan
25k • written 4.0 years ago by
Michael Steinbaugh
▴ 90
1
vote
3
replies
1.7k
views
unable to install DESeq2 there is no package called XML
deseq2
bioconductor
windows
xml
installation
updated 4.1 years ago by
Michael Love
42k • written 4.1 years ago by
sarah3
• 0
0
votes
1
reply
1.9k
views
ensembldb package installation issue
ensembldb
package
installation
BiocManager
updated 4.1 years ago by
Kevin Blighe
★ 4.0k • written 4.1 years ago by
dylangagler
• 0
3
votes
3
replies
1.5k
views
Incomplete Install of Bioconductor Packages
Installation
Packages
Missing
updated 4.1 years ago by
Laurent Gatto
1.6k • written 4.4 years ago by
sreedta8
▴ 10
1
vote
3
replies
4.6k
views
installation failure with BiocManager (URL status was 'Couldn't resolve proxy name')
bioconductor
installation
proxy
BiocManager
updated 4.3 years ago by
Martin Morgan
25k • written 4.3 years ago by
chen
• 0
2
votes
8
replies
2.8k
views
DelayedArray loading Warning causes stop in Bioconductor 3.12
DelayedArray
warning
installation
updated 4.3 years ago by
Hervé Pagès
16k • written 4.3 years ago by
inzirio
▴ 10
0
votes
1
reply
1.0k
views
Difficulty Installing Bioconductor
Installation
updated 4.3 years ago by
Martin Morgan
25k • written 4.3 years ago by
terrylthomas2804
• 0
1
vote
3
replies
4.6k
views
"Permission denied" when installing TCGAbiolinks and RTCGAToolbox
installation
permission denied
RTCGAToolbox
TCGAbiolinks
4.4 years ago
julia.tutzauer
• 0
3
votes
4
replies
1.7k
views
Can't install packages on R or via Bioconductor
R
installation
packages
annotatr
biocmanager
4.4 years ago
dakarai_esgdaille
▴ 10
0
votes
2
replies
1.2k
views
Problems while installing HTSeqGenie and gmapR
software error
HTSeq
installation
updated 4.5 years ago by
Martin Morgan
25k • written 4.6 years ago by
eric33150
• 0
0
votes
2
replies
1.4k
views
Unable to install package
packages
installation
GenomeGraphs
updated 4.6 years ago by
James W. MacDonald
67k • written 4.6 years ago by
alex
• 0
5
votes
5
replies
1.0k
views
Installation: go to specific version of a package prompted
software error
installation
updated 4.7 years ago by
James W. MacDonald
67k • written 4.7 years ago by
GENOMIC_region
• 0
4
votes
5
replies
2.0k
views
Downgrading R to 3.6.0 version (GOseq problem)
goseq
installation
4.7 years ago
gdalsky
▴ 40
2
votes
2
replies
1.1k
views
How to write the installation section in the vignette of a package that has not been sent into Bioconductor yet
newpackage
vignette
installation
updated 4.9 years ago by
shepherl
4.0k • written 4.9 years ago by
Krutik Patel
▴ 10
0
votes
6
replies
8.5k
views
Rhtslib - install error
Rhtslib
installation
error
zlib
updated 5.0 years ago by
leoadam014
• 0 • written 5.9 years ago by
boboshaq
• 0
0
votes
3
replies
1.9k
views
Can't install Genesis
Genesis
Installation
updated 5.1 years ago by
Mike Smith
★ 6.5k • written 5.1 years ago by
winstondunnmd
▴ 10
1
vote
4
replies
1.8k
views
flowCore install missing a dependency?
flowCore
Installation
dependency
updated 5.3 years ago by
Jake Wagner
▴ 310 • written 5.3 years ago by
Robert Baer
▴ 70
0
votes
1
reply
1.1k
views
ChemmineOB Installation RHEL
ChemmineOB
Linux
Installation
5.5 years ago
jandrosavich
• 0
0
votes
1
reply
1.1k
views
Error when install bioconductor on Mac 10.12 Sierra
installation
updated 5.8 years ago by
Martin Morgan
25k • written 5.8 years ago by
thatwasfunny
• 0
1
vote
1
reply
1.1k
views
GenomicFeatures won't install for 3.8 release
installation
biocmanager
updated 5.9 years ago by
shepherl
4.0k • written 5.9 years ago by
Michael Steinbaugh
▴ 90
0
votes
4
replies
1.6k
views
BiocManager::install() breaks; can't install bioc-devel
biocmanager
installation
6.0 years ago
Kyle Johnsen
▴ 30
0
votes
2
replies
9.1k
views
Is there a way to specify where BiocInstaller will install packages similar to the "lib=...." for install.packages?
biocinstaller
custom library path
installation
package installation
updated 6.0 years ago by
James W. MacDonald
67k • written 6.0 years ago by
ariel
▴ 20
0
votes
1
reply
1.2k
views
DelayedArray install fails to UNC path
delayedarray
bug
installation
updated 6.1 years ago by
Martin Morgan
25k • written 6.2 years ago by
simon.andrews
• 0
0
votes
1
reply
1.8k
views
install ChAMP under Ubuntu 18.04 in R 3.4.4 with error "maximal number of DLLs reached..."
ChAMP
software error
installation
6.2 years ago
chxp
• 0
0
votes
3
replies
2.3k
views
Dependency installation error due to no longer available CRAN packages ('rngtools', 'pkgmaker')
installation
minfi
bumphunter
updated 6.3 years ago by
Peter Hickey
▴ 740 • written 6.3 years ago by
muellerf
• 0
0
votes
2
replies
2.2k
views
reactome.db install problem
installation
6.4 years ago
xinfu.xia
• 0
2
votes
3
replies
1.3k
views
Cannot install Rhtslib on Mac OS 10.13
rhstlib
installation
compilation error
6.4 years ago
Ryan C. Thompson
★ 7.9k
0
votes
1
reply
1.8k
views
Install package phyloseq
installation
phyloseq
updated 6.5 years ago by
Martin Morgan
25k • written 6.5 years ago by
layeb
• 0
1
vote
1
reply
3.5k
views
Cannot use Bioconductor with new conda R installation?
bioconductor
biocinstaller
installation
conda
6.6 years ago
jol.espinoz
▴ 40
6
votes
2
replies
1.8k
views
Is there a way to tell biocLite() to install a Bioconductor package only if it is not installed already?
bioclite
package installation
installation
install
updated 6.6 years ago by
Mike Smith
★ 6.5k • written 6.6 years ago by
cristian
▴ 10
0
votes
3
replies
3.0k
views
ERROR: compilation failed for package RSQLite
ubuntu
installation
updated 6.7 years ago by
Martin Morgan
25k • written 6.7 years ago by
Deleted
▴ 70
0
votes
1
reply
2.7k
views
installation of package 'goseq' had non-zero exit status
goseq
installation
updated 6.8 years ago by
Martin Morgan
25k • written 6.8 years ago by
philipp.voss
• 0
0
votes
1
reply
1.3k
views
Issues installing "CardinalWorkflows"
installation
CardinalWorkflows
Imaging mass spectrometry
Cardinal
updated 6.8 years ago by
Valerie Obenchain
★ 6.8k • written 6.8 years ago by
xander.spotbeen
• 0
1
vote
0
replies
1.2k
views
Reinstalling failing - Check packages for root user, too
biocinstaller
root
installation
installation problem
6.9 years ago
charles.tilford
▴ 10
0
votes
0
replies
1.4k
views
Problem with ade4 when upgrading to Rstudio 1.1 and OpenR 3.4
phyloseq
installation
ade4
macos
6.9 years ago
sprague
• 0
50 results • Page
1 of 1
Recent ...
Replies
Answer: KEGGgraph result difference
by
alex.pico
▴ 20
I'm not surprised that this fails. Not all GraphNELs nor igraphs are the same, so these chains of conversions are fraught with peril. Assu…
Answer: In the sesame package, what does the estimate output mean from testEnrichment()
by
James W. MacDonald
67k
It's right there in the output (`Log2(OR)`). It's doing a Fisher's exact test, which returns an odds ratio, and the output is the log odds …
Comment: WGCNA Choosing soft threshold power below R^2 0.8
by
Lluís Revilla Sancho
▴ 730
This is not a bioconductor pacakge, but have you considered that something might be off with your data? Do you have enough samples of each …
Comment: WARNING: No Bioconductor dependencies detected.
by
katja.danielzik
• 0
Hi Laurent, thank you for your answer! Yes, I will use the Summarized Experiment class in package. Best, Katja
Comment: Rsubread alignment crashes at 35%, valgrind indicates invalid writes
by
venusian.martin
• 0
EDIT: I managed to find the documentation where `sublong` is noted :) When I use sublong with the same inputs as in my OP, I get this err…
Votes
C: Usability of ERCC spike-ins in standard RNAseq experiments
A: Usability of ERCC spike-ins in standard RNAseq experiments
A: Using the ERCC spike as a normalization factor for a custom algorithm
Answer: Cannabis and KEGGgraph
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