Showing : bioconductor • reset
0
votes
21
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2.4k
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problem installing ENmix package
ENmix Bioconductor rtracklayer
written 3.1 years ago by • 0
3
votes
18
replies
2.8k
views
News: List of Deprecated Packages for Bioc3.18
Deprecation devel Bioconductor Devel
9 months ago • updated 16 hours ago shepherl 3.8k
5
votes
18
replies
7.4k
views
Install DESeq2 problem for macbook pro M1 Max
Bioconductor Install DESeq2
updated 3 months ago by • 0 • written 2.2 years ago by • 0
1
vote
13
replies
11k
views
unable to access index for repository
Bioconductor ConsensusClusterPlus
updated 8 months ago by • 0 • written 16 months ago by • 0
2
votes
11
replies
891
views
Error MakeOrgPackagefromNCBI
Bioconductor
updated 10 weeks ago by ★ 3.9k • written 6 months ago by • 0
6
votes
11
replies
889
views
Packages don't update, but no error or warning is thrown
Bioconductor
11 weeks ago • updated 8 weeks ago gernophil • 0
4
votes
10
replies
1.7k
views
Archives prior to 3.15 gone
archive bioconductor
updated 5 months ago by 3.8k • written 19 months ago by ▴ 30
0
votes
8
replies
8.5k
views
Bioconductor version cannot be validated
BiocManager Bioconductor
updated 4 months ago by 690 • written 2.7 years ago by ▴ 10
0
votes
7
replies
312
views
Internet connection for Bioconductor packages in Rstudio in Iran...
No_internet_connection_Packages Proxy Bioconductor GEOquery Internet_connection_problem
18 days ago • updated 15 days ago needNGS • 0
0
votes
6
replies
2.1k
views
Error when Installing BioConductor Package ('affy')
Bioconductor Install affy
updated 5 months ago by ★ 4.0k • written 16 months ago by • 0
0
votes
6
replies
818
views
Merge 2 accounts, or delete 1 account.
Bioconductor ALL
10 months ago simone.tiberi • 0
2
votes
5
replies
1.3k
views
edgeR Help: Getting no DGEs with an FDR < 0.05
edgeR RNASeq RNASeqData Bioconductor
written 13 months ago by • 0
0
votes
5
replies
929
views
What to whitelist in Firewall to allow downloading packages
Bioconductor NetworkInference
updated 9 months ago by 3.8k • written 9 months ago by • 0
0
votes
5
replies
9.2k
views
tximport all(file.exists(files)) is not TRUE
bioconductor tximport rnaseq R
updated 29 days ago by • 0 • written 7.6 years ago by • 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 ▴ 10
3
votes
5
replies
1.1k
views
why is downloading the .tar.gz file for a given bioconductor package, then installing with R CMD INSTALL so much more effective than BiocManager::ins…
Bioconductor Install library biocmanager
updated 9 months ago by 6.7k • written 9 months ago by ▴ 20
1
vote
4
replies
714
views
running Bioconductor Docker images only works with versions <= 3.15
Bioconductor
8 months ago patrick.turko • 0
2
votes
4
replies
3.7k
views
How to convert large gene counts data into matrix?
R Bioconductor singlecell bioinformatics seurat
updated 9 weeks ago by 50k • written 4.7 years ago by • 0
2
votes
4
replies
573
views
Import a Bioconductor package that is only used in a vignette/.Rmd script
Bioconductor PackageType BiocStyle
updated 5 months ago by 3.8k • written 5 months ago by • 0
0
votes
4
replies
723
views
problem while retriving the genes by using p value and log2fc as conditions
Bioconductor Transcriptomics DifferentialExpression DESeq2
11 months ago sreeshmaraj72 • 0
0
votes
4
replies
658
views
Bioconductor installation
Bioconductor
written 3 months ago by • 0
1
vote
4
replies
393
views
Can't post a question containing code?
Bioconductor
updated 9 weeks ago by ▴ 730 • written 9 weeks ago by ▴ 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 • 0
0
votes
3
replies
516
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
2
votes
3
replies
1.2k
views
Problem with function combine regarding merging two data frames based on their common rows
bioconductor merge data frames combine biocgenerics
8.4 years ago • updated 5 months ago Konstantinos Yeles ▴ 80
4
votes
3
replies
313
views
Bioconductor code browser time out
Bioconductor
updated 3 months ago by ★ 6.5k • written 3 months ago by ▴ 30
0
votes
2
replies
1.3k
views
Conducting pair-wise comparison in DESeq2?
DESeq2 deseq2 biocondu Bioconductor RNASeq
written 14 months ago by • 0
0
votes
2
replies
150
views
bioconductor emailing list
Bioconductor
updated 23 days ago by 3.8k • written 23 days ago by • 0
0
votes
2
replies
879
views
MACS2 not installing
Bioconductor
7 months ago alia.sinqua • 0
0
votes
2
replies
600
views
For R version 4.0.2 and Biconductor version 3.11, clusterProfiler is not working
Bioconductor clusterProfiler
updated 6 months ago by 65k • written 6 months ago by • 0
1
vote
2
replies
639
views
unable to retrieve certain packages from bioconductor 3.15
Bioconductor biocondu
updated 8 months ago by 65k • written 8 months ago by ▴ 10
0
votes
2
replies
754
views
GenomicRanges coult not be loaded after R upgrade
DESeq2 Bioconductor GenomicRanges
updated 11 months ago by • 0 • written 11 months ago by • 0
5
votes
2
replies
691
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
836
views
News: List of Deprecated Packages for Bioc3.17
Bioconductor Deprecation Devel devel
12 months ago • updated 10 months ago shepherl 3.8k
2
votes
2
replies
288
views
How to contact Bioconductor's test host?
Bioconductor
updated 3 months ago by 16k • written 3 months ago by ▴ 30
0
votes
2
replies
1.0k
views
Bioconductor version cannot be validated
Bioconductor
updated 5 months ago by • 0 • written 7 months ago by • 0
1
vote
2
replies
229
views
supportedOrganisms() in goseq producing Error in names(trackIds)
goseq Bioconductor rtracklayer
5 weeks ago thomas • 0
0
votes
2
replies
2.3k
views
vmatchPattern on DNAstring set
Bioconductor
8 months ago Avner • 0
0
votes
1
reply
274
views
News: BioC2024 abstract submission is open!
BioC2024 Conference Bioconductor
updated 4 weeks ago by • 0 • written 8 weeks ago by ▴ 70
0
votes
1
reply
202
views
Bioconductor: Won't Update to 3.18 with Default Command
Bioconductor
updated 9 weeks ago by ▴ 730 • written 9 weeks ago by ▴ 30
0
votes
1
reply
579
views
bioconductor - rhdf5 is not avbauloable for bioconductor version "3.14"
Bioconductor Install
updated 9 months ago by ★ 6.5k • written 9 months ago by • 0
0
votes
1
reply
184
views
Limitation on single file size and package size when developing Bioc package
packagedevelopment datalimit Bioconductor
updated 10 weeks ago by 16k • written 10 weeks ago by • 0
1
vote
1
reply
692
views
News: Join the Community Advisory Board -- upcoming elections -- deadline Today
Bioconductor CAB bioconductoroversight community
written 16 months ago by 3.8k
0
votes
1
reply
838
views
Potential segfault bug in featureCounts using long read data
Bioconductor Rsubread featureCounts
updated 11 months ago by ★ 3.6k • written 11 months ago by • 0
2
votes
1
reply
260
views
News: "Edit" button not working
Bioconductor Website SupportSite
updated 10 weeks ago by • 0 • written 3 months ago by 3.8k
0
votes
1
reply
324
views
Advice needed on package using online databases (fails CHECK when database is down)
Bioconductor
updated 5 months ago by 3.8k • written 5 months ago by ▴ 30
0
votes
1
reply
449
views
Read methylation data from tar files on GEO (GSE73303)
GeneExpression Bioconductor GEOquery MethylationArrayData
9 months ago Arianna • 0
0
votes
1
reply
3.3k
views
Bioconductor version cannot be validated
Bioconductor Annotation Ann
updated 7 months ago by 65k • written 7 months ago by • 0
0
votes
1
reply
1.2k
views
News: BioC2023 abstract submission is now open!
presentation BioC2023 Conference community Bioconductor
written 14 months ago by ▴ 70
1
vote
1
reply
1.0k
views
News: Nominations for Bioconductor 2022 Awards!
Bioc2022 Awards Bioconductor Recognition
written 2.1 years ago by 3.8k
50 results • Page 1 of 1
Recent ...
Replies
Comment: DESeq filtering specific to contrasts by Carlin95 • 0
But wouldn't this result in a different gene set for each analysis stratification? How can you then compare if maybe gene x comes up in Tim…
Comment: Reading huge bismark coverage files using bbseq::read.bismark by jacques.imbert • 0
Hello, Using nThread = 1L fixed the issue. Thank you for your time and help.
Comment: Error in champ.load(): The following specified files do not exist by Basti ▴ 760
The error stems from the Basename column, please see solution here : https://support.bioconductor.org/p/p132482/
Comment: FilterByExpr low counts with small sample size by Gordon Smyth 50k
As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…
Comment: Batch correction and repeated measures by Gordon Smyth 50k
In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…
Votes
Comment: Reading huge bismark coverage files using bbseq::read.bismark
Answer: Reading huge bismark coverage files using bbseq::read.bismark
Answer: Reading huge bismark coverage files using bbseq::read.bismark
Answer: How many of my genes from my gene list are in each KEGG pathway?
Comment: Light difference when using coef vs omit a group when compare 3 groups.
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