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 :
package
•
reset
3
votes
2
replies
82
views
I cannot install annotables package in Rstudio (macOS)
DESeq2
PackageTypeData
package
Annotation
8 days ago • updated 4 days ago
m-bihie
▴ 10
0
votes
3
replies
741
views
Can't Install ensembldb and EnsDb.Hsapiens.v86
installation
EnsDb.Hsapiens.v86
Bioconductor
package
ensembldb
7 months ago
elmfinds
• 0
1
vote
6
replies
1.2k
views
Installing Local packages in Bioconductor
package
updated 8 months ago by
James W. MacDonald
62k • written 9 months ago by
BioC123
• 0
3
votes
3
replies
386
views
Package fail to build
package
OpenStats
updated 9 months ago by
Hervé Pagès
16k • written 9 months ago by
hamedhm
• 0
0
votes
2
replies
347
views
Forking a package/install from source
install
package
fork
bugfix
updated 9 months ago by
James W. MacDonald
62k • written 9 months ago by
Jeff
• 0
0
votes
3
replies
679
views
More Bioconductor Package Installation Problems
package
symlinks
directories
installation
Dropbox
updated 10 months ago by
Hervé Pagès
16k • written 10 months ago by
jose
▴ 10
0
votes
1
reply
582
views
How to download annotation package for oryza sativa Japonica and Oryza sativa indica for pathway analysis?
reactomePA
package
annotation
updated 12 months ago by
shepherl
3.4k • written 12 months ago by
mathavanbioinfo
▴ 20
0
votes
6
replies
1.5k
views
installing older versions of packages
package
20 months ago • updated 19 months ago
zuljiamel1991
• 0
0
votes
2
replies
485
views
Confusion error from automated checks for package submission
package
submiss
Submission
updated 21 months ago by
Hervé Pagès
16k • written 21 months ago by
sara.stankiewicz
• 0
1
vote
1
reply
463
views
simplifyEnrichment install error
package
Rversion
Install
simplifyEnrichment
updated 22 months ago by
shepherl
3.4k • written 22 months ago by
ch_el
▴ 10
2
votes
4
replies
701
views
Bioconductor package development
package
R
software
development
updated 2.3 years ago by
Martin Morgan
25k • written 2.3 years ago by
Dany
• 0
2
votes
8
replies
2.2k
views
Which R version is needed for tximport package?
tximport
package
R version
install tximport
2.4 years ago
harelarik
▴ 60
0
votes
1
reply
885
views
ensembldb package installation issue
ensembldb
package
installation
BiocManager
updated 2.5 years ago by
Kevin Blighe
3.7k • written 2.5 years ago by
dylangagler
• 0
0
votes
2
replies
362
views
New package function redistribution
package
license
C
R
2.9 years ago
adam.eleni1
• 0
3
votes
3
replies
724
views
Repeated error loading DESqe2 - package xxx not found
deseq2
package
software error
updated 2.9 years ago by
Martin Morgan
25k • written 2.9 years ago by
DcL-A
• 0
0
votes
1
reply
574
views
I have installed bioconductor, R still asks me to install it
bioconductor
biocLite
GEOquery
package
updated 3.1 years ago by
Steve Lianoglou
13k • written 3.1 years ago by
luhan.ni
• 0
0
votes
1
reply
435
views
Package not found bioconductor gCMAP
microarray
cmap
package
gCMAP
gCAMPWeb
updated 3.2 years ago by
Martin Morgan
25k • written 3.2 years ago by
bastien.chassagnol
• 0
0
votes
4
replies
508
views
CDF still not found
CDF
Package
updated 3.2 years ago by
James W. MacDonald
62k • written 3.2 years ago by
ekl
• 0
0
votes
1
reply
589
views
Submitting R package in Bioconductor with Plink and vcftools Dependencies
R
package
dependencies
updated 3.9 years ago by
Aaron Lun
★ 28k • written 3.9 years ago by
MAPK
• 0
1
vote
2
replies
574
views
Gallus gallus package genome update release
genome
novel
package
release
updated 4.0 years ago by
James W. MacDonald
62k • written 4.0 years ago by
pertille
• 0
1
vote
3
replies
816
views
News:
Initial List of Deprecated Package Bioc 3.9
package
deprecate
release
News
updated 4.2 years ago by
Wolfgang Huber
13k • written 4.2 years ago by
shepherl
3.4k
0
votes
0
replies
625
views
Pathview input error: non-numeric variable in data frame
pathview
kegg
pathways
package
4.3 years ago
anc.informatics
• 0
2
votes
1
reply
624
views
Curated Data Package in Bioconductor
package
data
4.4 years ago
divyswar01
• 0
2
votes
3
replies
972
views
News:
List of Deprecated Packages for Bioc3.8
package
release
deprecate
News
4.5 years ago
shepherl
3.4k
1
vote
6
replies
2.3k
views
how to create a NEWS file in R package
news
package
updated 4.5 years ago by
ahlammajid352
• 0 • written 4.5 years ago by
xyluo1991
• 0
1
vote
4
replies
3.6k
views
Unable to install BiocStyle: not available (for R version 3.5.0)
package
not available (for R version 3.5.0)
BiocStyle
updated 4.7 years ago by
Mike Smith
★ 5.9k • written 4.7 years ago by
nereidaramirez
• 0
0
votes
1
reply
592
views
News:
List of Deprecated Packages for Bioc3.8
package
deprecate
release
news
News
4.7 years ago
shepherl
3.4k
1
vote
2
replies
672
views
Request to remove requirement for gr to have widths 1 in BSseq constructor
bsseq
r
package
updated 4.7 years ago by
emmascottgm
• 0 • written 4.7 years ago by
rcavalca
▴ 140
0
votes
1
reply
743
views
News:
Final List of Deprecated Packages for Bioc3.7
deprecate
package
release
News
4.8 years ago
shepherl
3.4k
0
votes
0
replies
649
views
News:
Release Deadline: Passing R CMD build and R CMD check
package
build
build/check error
check
release
News
4.8 years ago
shepherl
3.4k
12
votes
3
replies
5.1k
views
Error while uploading Bioconductor packages - R Shiny
shiny
package
deploy
4.9 years ago
lloyd.izard
▴ 80
1
vote
5
replies
1.3k
views
Tissue Specificity R-package
tissue
specificity
r
package
package development
updated 4.9 years ago by
jaro.slamecka
▴ 130 • written 4.9 years ago by
BioinfGuru
▴ 20
0
votes
2
replies
1.1k
views
GOenrichmentAnalysis of WGCNA mocules in Zea mays
annotation
wgcna
package
5.0 years ago
j.baldauf
• 0
3
votes
2
replies
592
views
Prevent "New version" message to appear
package
updated 5.0 years ago by
Martin Morgan
25k • written 5.0 years ago by
nick
▴ 10
0
votes
2
replies
1.4k
views
Creating a qPCRset object from a text file
qPCRset object
nondetects
r
package
txt
updated 5.1 years ago by
valery.sherina
▴ 10 • written 5.1 years ago by
s.m.may
• 0
0
votes
1
reply
733
views
Error in export ifelse from IRanges
iranges
ifelse
package
namespace
export
updated 5.1 years ago by
James W. MacDonald
62k • written 5.1 years ago by
dalibor.miklik
• 0
1
vote
2
replies
666
views
R packages old versions
R
deseq2
package
updated 5.2 years ago by
Michael Love
39k • written 5.2 years ago by
minie
• 0
1
vote
1
reply
708
views
Large example data with Bioconductor package
package
updated 5.3 years ago by
shepherl
3.4k • written 5.3 years ago by
Marek Gierlinski
▴ 10
1
vote
0
replies
673
views
News:
Shields/Badges on Package landing pages
package
badges
shields
News
5.3 years ago
shepherl
3.4k
4
votes
7
replies
1.5k
views
Does Rhtslib currently work on Windows?
Rhtslib
htslib
package
updated 5.5 years ago by
Martin Morgan
25k • written 5.5 years ago by
Shian Su
▴ 40
1
vote
7
replies
1.2k
views
Ballgown object construction error
ballgown
scan
error
package
5.7 years ago • updated 5.6 years ago
spaque57
• 0
0
votes
1
reply
1.0k
views
Error in installing ReactomePA
R
package
updated 5.8 years ago by
Martin Morgan
25k • written 5.8 years ago by
niutster
• 0
0
votes
1
reply
889
views
missMethyl package: gsameth bias plots
missmethyl
plots
bias
package
updated 5.9 years ago by
belinda.phipson
▴ 30 • written 5.9 years ago by
evani.radiya.dixit
• 0
0
votes
8
replies
5.9k
views
not able to install bioconductor packages
package
bioconductor
new version
6.0 years ago
farahqureshi5
• 0
0
votes
2
replies
794
views
Weighted matrix from igraph to graphNEL
package
6.2 years ago
antonia91.barile
• 0
0
votes
5
replies
1.2k
views
Using S4Vectors within a package
Package
s4vectors
updated 6.3 years ago by
Martin Morgan
25k • written 6.3 years ago by
my4
▴ 10
0
votes
1
reply
957
views
How to submit a package hosted on Bitbucket
package
submission
updated 6.4 years ago by
Martin Morgan
25k • written 6.4 years ago by
richierocks
▴ 40
0
votes
1
reply
1.0k
views
ChAMP package library loading error
methylation
package
6.6 years ago
sdeshpande
• 0
0
votes
1
reply
584
views
I want to submit a package to Bioconductor by Github. But it always comes out an inexplicable problems
package
updated 6.6 years ago by
Martin Morgan
25k • written 6.6 years ago by
taosheng.x
• 0
1
vote
2
replies
778
views
New package version submission
package
submit package
package updates
6.6 years ago
francescodc87
• 0
50 results • Page
1 of 1
Recent ...
Replies
Answer: struggling to create a heatmap
by
ATpoint
★ 2.1k
I am reluctant to read through that wall of code. Here is what would work. Note that prefiltering makes sense before, not after running `DE…
Answer: collapseReplicates error after tximeta
by
Michael Love
39k
The issue is that `collapseReplicates` just collapses `counts` and doesn't account for multiple assays which you need for e.g. Swish or oth…
Comment: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it
by
ATpoint
★ 2.1k
That having said, I recommend to inspect the MA-plots (`plotMA()`), at best the ones produced right from `res <- results(dds); plotMA(res)`…
Answer: Which genes are outliers in DESeq2?
by
ATpoint
★ 2.1k
You can take over some of the lines from `results()` to find them easily: ```r suppressPackageStartupMessages(library(DESeq2)) set.s…
Answer: Which genes are outliers in DESeq2?
by
Michael Love
39k
Outliers will have high maxCooks values in `mcols(dds)` -- the threshold is `qf(.99, p, n - p)` where n is sample size and p is number of c…
Votes
Significant reporter activity with mpralm function
Answer: I cannot install annotables package in Rstudio (macOS)
Answer: log2 of normalized counts for further analyzes
Answer: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it
Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it should *not* be used
Awards
• All
Popular Question
to
Ryan
• 0
Popular Question
to
Guido Hooiveld
★ 3.5k
Scholar
to
James W. MacDonald
62k
Commentator
to
Michael Love
39k
Popular Question
to
twtoal
▴ 10
Locations
• All
WEHI, Melbourne, Australia,
49 minutes ago
Germany,
56 minutes ago
Germany,
1 hour ago
Turkey,
2 hours ago
Italy,
2 hours ago
Traffic: 214 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