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BioConductor
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Tutorial:
Install/Switch between multiple versions of R and Bioconductor
bioconductor
Install
just now
BioinfGuru
▴ 20
3
votes
18
replies
2.8k
views
News:
List of Deprecated Packages for Bioc3.18
Deprecation
devel
Bioconductor
Devel
9 months ago • updated 1 day ago
shepherl
3.8k
0
votes
0
replies
64
views
News:
Important Release 3.18 Freeze Announcment
Release
release
Bioconductor
Bioconducto
6 days ago
shepherl
3.8k
0
votes
7
replies
319
views
Internet connection for Bioconductor packages in Rstudio in Iran...
No_internet_connection_Packages
Proxy
Bioconductor
GEOquery
Internet_connection_problem
19 days ago • updated 16 days ago
needNGS
• 0
0
votes
2
replies
152
views
bioconductor emailing list
Bioconductor
updated 24 days ago by
shepherl
3.8k • written 24 days ago by
1427972815
• 0
0
votes
0
replies
117
views
News:
Deadline Extended - BioC2024 Abstracts and Sticker Contest - April 1st!
BioC2024
Conference
Bioconductor
27 days ago
Maria Doyle
▴ 70
0
votes
0
replies
106
views
News:
Nominations for Bioconductor Awards 2024!
Recognition
Awards
Bioconductor
Bioc204
27 days ago
shepherl
3.8k
1
vote
2
replies
231
views
supportedOrganisms() in goseq producing Error in names(trackIds)
goseq
Bioconductor
rtracklayer
6 weeks ago
thomas
• 0
1
vote
0
replies
242
views
News:
Nominations for Bioconductor Awards 2024!
Recognition
Awards
Bioconductor
Bioc2024
8 weeks ago • updated 6 weeks ago
shepherl
3.8k
0
votes
1
reply
276
views
News:
BioC2024 abstract submission is open!
BioC2024
Conference
Bioconductor
updated 4 weeks ago by
howell
• 0 • written 8 weeks ago by
Maria Doyle
▴ 70
0
votes
0
replies
150
views
News:
BioC2024 registration is now open!
BioC2024
Conference
Bioconductor
Community
6 weeks ago
Maria Doyle
▴ 70
6
votes
11
replies
892
views
Packages don't update, but no error or warning is thrown
Bioconductor
11 weeks ago • updated 8 weeks ago
gernophil
• 0
0
votes
0
replies
149
views
News:
EuroBioC2024 abstract submission is open!
Conference
Bioconductor
EuroBioC2024
9 weeks ago
Maria Doyle
▴ 70
2
votes
0
replies
214
views
News:
Upholding our core values: a reminder of the Bioconductor Code of Conduct
Bioconductor
9 weeks ago
Maria Doyle
▴ 70
0
votes
1
reply
204
views
Bioconductor: Won't Update to 3.18 with Default Command
Bioconductor
updated 9 weeks ago by
Lluís Revilla Sancho
▴ 730 • written 9 weeks ago by
vanbelj
▴ 30
1
vote
4
replies
394
views
Can't post a question containing code?
Bioconductor
updated 9 weeks ago by
Lluís Revilla Sancho
▴ 730 • written 9 weeks ago by
DS
▴ 10
0
votes
1
reply
185
views
Limitation on single file size and package size when developing Bioc package
packagedevelopment
datalimit
Bioconductor
updated 10 weeks ago by
Hervé Pagès
16k • written 10 weeks ago by
Xin Wang
• 0
0
votes
0
replies
186
views
News:
Note about packages submitted for Bioconductor 3.19
Release
Submission
release
Bioconductor
11 weeks ago
shepherl
3.8k
2
votes
1
reply
262
views
News:
"Edit" button not working
Bioconductor
Website
SupportSite
updated 11 weeks ago by
Lori
• 0 • written 3 months ago by
shepherl
3.8k
2
votes
2
replies
289
views
How to contact Bioconductor's test host?
Bioconductor
updated 3 months ago by
Hervé Pagès
16k • written 3 months ago by
Marek Gierlinski
▴ 30
0
votes
4
replies
669
views
Bioconductor installation
Bioconductor
written 3 months ago by
Akhil
• 0
4
votes
3
replies
314
views
Bioconductor code browser time out
Bioconductor
updated 3 months ago by
Mike Smith
★ 6.5k • written 3 months ago by
Marek Gierlinski
▴ 30
3
votes
1
reply
283
views
News:
Bioconductor.org has a new look!
Bioconductor
Website
written 3 months ago by
shepherl
3.8k
0
votes
0
replies
244
views
News:
Online course - FLOW CYTOMETRY DATA ANALYSIS WITH R/BIOCONDUCTOR
Bioconductor
FlowCytometryData
FlowCytometry
4 months ago
info
▴ 10
0
votes
3
replies
1.6k
views
Error in library(oligo) : package or namespace load failed for ‘oligoClasses’
R
oligoClasses
Oligoclass
Bioconductor
Oligo
written 3.1 years ago by
tanya
• 0
1
vote
5
replies
2.1k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo
microarray
r
bioconductor
written 9.2 years ago by
chandlerjd58
▴ 10
5
votes
1
reply
414
views
News:
Bioconductor 3.18 is Released!
Packages
Bioconductor
Release
Software
written 5 months ago by
shepherl
3.8k
0
votes
0
replies
221
views
Normalising processed Proteomics data in R
Bioconductor
Proteomics
4 months ago
Joshua
• 0
0
votes
6
replies
2.1k
views
Error when Installing BioConductor Package ('affy')
Bioconductor
Install
affy
updated 5 months ago by
ATpoint
★ 4.0k • written 16 months ago by
laujihen
• 0
2
votes
0
replies
468
views
News:
Bioconductor's Transition Away from Twitter/X
Bioconductor
5 months ago
Maria Doyle
▴ 70
0
votes
0
replies
267
views
News:
CRAN downtime
BiocManager
Bioconductor
5 months ago
shepherl
3.8k
2
votes
4
replies
577
views
Import a Bioconductor package that is only used in a vignette/.Rmd script
Bioconductor
PackageType
BiocStyle
updated 5 months ago by
shepherl
3.8k • written 5 months ago by
lavanilla44
• 0
0
votes
1
reply
736
views
Job:
Bioinformatics Laboratory Head in AI or machine learning (WEHI, Australia)
bioconductor
artificialintelligence
JobPosting
machinelearning
7 months ago • updated 5 months ago
Gordon Smyth
50k
0
votes
3
replies
521
views
Support for installation and usage of TxDb.Hsapiens.UCSC.hg19.knownGene package in R version 4.2.2
Bioconductor
BiocPkgTools
5 months ago
blessybo
• 0
0
votes
1
reply
326
views
Advice needed on package using online databases (fails CHECK when database is down)
Bioconductor
updated 5 months ago by
shepherl
3.8k • written 5 months ago by
Marek Gierlinski
▴ 30
4
votes
10
replies
1.7k
views
Archives prior to 3.15 gone
archive
bioconductor
updated 5 months ago by
shepherl
3.8k • written 19 months ago by
Florian Finkernagel
▴ 30
0
votes
0
replies
344
views
News:
COURSE - Developing R/Bioconductor Packages for Genomics
Bioconductor
PackageTypeData
PackageType
6 months ago
info
▴ 10
2
votes
1
reply
823
views
limma::topTable with adjust.method=NULL is not BH corrected (manual is inconsistent with behavior?)
Bioconductor
biocon
limma
updated 6 months ago by
Gordon Smyth
50k • written 6 months ago by
ningyuan
• 0
2
votes
11
replies
895
views
Error MakeOrgPackagefromNCBI
Bioconductor
updated 10 weeks ago by
Guido Hooiveld
★ 3.9k • written 6 months ago by
cinzia.spagnoli
• 0
5
votes
2
replies
694
views
ComBat_seq function in sva package does not return a matrix
sva
ComBat
ComBat-seq
Bioconductor
ComBat_seq
6 months ago
Federico
▴ 10
0
votes
2
replies
603
views
For R version 4.0.2 and Biconductor version 3.11, clusterProfiler is not working
Bioconductor
clusterProfiler
updated 6 months ago by
James W. MacDonald
65k • written 6 months ago by
nilanjanamani88
• 0
0
votes
2
replies
1.1k
views
Bioconductor version cannot be validated
Bioconductor
updated 5 months ago by
Manuel
• 0 • written 7 months ago by
xlu.cpu
• 0
0
votes
1
reply
3.3k
views
Bioconductor version cannot be validated
Bioconductor
Annotation
Ann
updated 7 months ago by
James W. MacDonald
65k • written 7 months ago by
Aytaç
• 0
0
votes
2
replies
882
views
MACS2 not installing
Bioconductor
7 months ago
alia.sinqua
• 0
0
votes
0
replies
601
views
NAs in tabular output from DNAcopy
Bioconductor
DNAcopy
7 months ago
NewtoBioconductor
• 0
1
vote
4
replies
719
views
running Bioconductor Docker images only works with versions <= 3.15
Bioconductor
8 months ago
patrick.turko
• 0
0
votes
1
reply
374
views
Package "Netboost" is an Unix-only package, how can I install it in R?
Bioconductor
netboost
updated 8 months ago by
ATpoint
★ 4.0k • written 8 months ago by
laura1_z
• 0
1
vote
2
replies
641
views
unable to retrieve certain packages from bioconductor 3.15
Bioconductor
biocondu
updated 8 months ago by
James W. MacDonald
65k • written 8 months ago by
Ashton
▴ 10
1
vote
13
replies
11k
views
unable to access index for repository
Bioconductor
ConsensusClusterPlus
updated 8 months ago by
Mehdi
• 0 • written 16 months ago by
k.wickstrom
• 0
0
votes
0
replies
431
views
News:
Bioconductor.org website new design - We Need Your Input!
Bioconductor
Community
Website
8 months ago
Maria Doyle
▴ 70
50 results • Page
1 of 1
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Comment: Which input file is used for DGEList in EgdeR?
by
Michael Love
41k
"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Michael Love
41k
These genes are fine. They are just the ones where, by chance, the sample variance is below the sample mean. It happens. DESeq2 brings thes…
Comment: DEG with low counts
by
Michael Love
41k
These counts are too low, only a few samples above a count of 10. So for typical RNA-seq data that is underpowered to call differences. It…
Comment: DESeq filtering specific to contrasts
by
Michael Love
41k
If the counts are too low it in one group then you can't make the comparison either way (whether they are filtered out or just under-powere…
Comment: Estimating Cell Counts for EPIC V2 array data
by
normawiedman059
• 0
0 [103] spam_2.9-1 doParallel_1.0.17 iterators_1.0.14 [106] foreach_1.5.2 beeswarm_0.4.0 tgp_2.4-20 [109] beanplot_1.3.1 fpc_2.2-9 dbscan_1…
Votes
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
Comment: DEXSeq DEXSeqDataSet count matrix duplication
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