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0
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946
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Job: Bioinformatics Research Associate in Transcriptomics, Epigenomics and Multi-omics
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Job: Bioinformatics Research Associate, Genomics and Genetics
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2.1 years ago JP Cartailler ▴ 40
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2
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928
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Cannot open Sysmex Partec CUbe 6 .fcs with read.FCS
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2.1 years ago mrescan • 0
2
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5
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2.6k
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SparseArray unable to install on Bioc 3.18
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updated 2.1 years ago by 43k • written 2.1 years ago by • 0
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1
reply
834
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DESeq2 model for two genome system
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0
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1
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DESeq2: different results with and without releveling when providing contrast
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0
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Controling for Covariates With a Continuous Predictor Variable
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0
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2
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993
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Is my data too noisy for DESeq? Should I model noise as unwanted variation?
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2.1 years ago Ben ▴ 10
0
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2
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TCGA counts to TPM from recount3 do not seem to right
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0
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nondetects and technical replicates
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2.1 years ago Ed Siefker ▴ 230
0
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2
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SKAT-O method using GENESIS, question about range iterator using SeqVarWindowIterator
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read10xCounts for Cell Ranger 7 Output
DropletUtils
updated 2.1 years ago by ★ 5.0k • written 3.2 years ago by ★ 1.6k
1
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1
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HOW to FIX - PCAir excludes all my SNPs because there is no chromosome information
GENESIS autosome-only=FALSE? PCAir
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2
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4
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Import a Bioconductor package that is only used in a vignette/.Rmd script
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updated 2.1 years ago by 4.2k • written 2.1 years ago by • 0
1
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4
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1.2k
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rnaSeqGene workflow not available in Bioconductor 3.18
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updated 2.1 years ago by 43k • written 2.1 years ago by ▴ 60
0
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9
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3.3k
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DESeq2 result really different when only use some sample vs all sample
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6
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Conversion between different types of bioinformatic forms. (eg. NCBI protein to Ensembl protein) in R
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MA plot for DESEq2 analysis
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2.1 years ago RHEA • 0
0
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0
replies
609
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SGSeq how export PSI values for each typr of splice variant
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2.1 years ago Alison • 0
1
vote
1
reply
611
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DESeqResults object -> extract statistics results with rownames (gene)
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updated 2.1 years ago by ★ 5.0k • written 2.1 years ago by ▴ 50
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Job: Bioinformatics Laboratory Head in AI or machine learning (WEHI, Australia)
bioconductor artificialintelligence JobPosting machinelearning
written 2.3 years ago by 53k
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3
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Support for installation and usage of TxDb.Hsapiens.UCSC.hg19.knownGene package in R version 4.2.2
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2.1 years ago blessybo • 0
0
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7
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4.5k
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Graphics API Version Mismatch Error with DESeq2 and ggplot2 in RStudio on Ubuntu 22.04
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updated 2.1 years ago by 68k • written 2.1 years ago by • 0
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3
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904
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DESeq2: FPMs varying based on sample groups used
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4
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controling for batch effect while preserving variation within repeated measures that unevenly distributed across batches
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2.1 years ago Wending • 0
1
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1
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1.5k
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Deploying to shinyapps.io returns error for BiocVersion and phangorn packages
BiocVersion phangorn ShinyApps
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
0
votes
0
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866
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Gviz::GeneRegionTrack error with standard TxDb: "adding seqlevels to a TxDb object is not supported"
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2.1 years ago dbsgtk • 0
0
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8
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Quickly calculating adjusted Fold Change with DESeq2
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2.1 years ago Luca • 0
1
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0
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Gviz : UcscTrack
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2.1 years ago yujin ▴ 10
0
votes
7
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3.9k
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Unable to install RefPlus - R=4.3.1, BiocManager=3.18
Install instal
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
1
vote
1
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952
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DEXSeq DEXSeqDataSet count matrix duplication
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2.1 years ago NiKo ▴ 10
0
votes
6
replies
1.4k
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Unable to replicate figures of CBCS data after nSolver and RUVSeq normalization
RUVSeq
updated 2.1 years ago by 43k • written 2.1 years ago by • 0
0
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0
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743
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Mfuzz package loading issues
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2.1 years ago Jon • 0
0
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1
reply
674
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Advice needed on package using online databases (fails CHECK when database is down)
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updated 2.1 years ago by 4.2k • written 2.1 years ago by ▴ 30
0
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0
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850
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Include or exclude N/A genes (those without any KEGG annotation) when running Wilcox test?
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2.1 years ago mch • 0
1
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3
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1.2k
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Error in Gviz (actually, rtracklayer) | IdeogramTrack
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updated 2.1 years ago by 16k • written 2.1 years ago by ▴ 10
12
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10
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biomaRt not working - lazy table error
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updated 21 months ago by • 0 • written 2.1 years ago by ▴ 20
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4
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1.5k
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Mfuzz package loading issues
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2.1 years ago Jon • 0
0
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2
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866
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Can you help me generate a Bsgenome of the fusion genome of a human and HIV-1 virus?
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2.1 years ago 13273976287 • 0
0
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1
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2.6k
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Error when trying to create a heatmap with DESeq2
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updated 2.1 years ago by ▴ 780 • written 2.1 years ago by • 0
5
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2
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2.2k
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DecideTest vs topTAGs in edgeR
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updated 2.1 years ago by 53k • written 2.1 years ago by ▴ 10
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1
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1.3k
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How to calculate CDS start and End per transcript from GTF file
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2.1 years ago rohitsatyam102 ▴ 20
2
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10
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2.4k
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Accounting for Batch effect reduces DEGs drastically
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2.1 years ago rohitsatyam102 ▴ 20
2
votes
9
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3.6k
views
object HPOGENE is not exported by namespace HPO.db
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updated 2.1 years ago by ▴ 50 • written 2.1 years ago by ▴ 30
4
votes
10
replies
2.9k
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Archives prior to 3.15 gone
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updated 2.1 years ago by 4.2k • written 3.2 years ago by ▴ 30
0
votes
3
replies
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determine if R package or it's dependencies functionality require internet access
biomaRt
updated 2.1 years ago by 53k • written 2.1 years ago by • 0
0
votes
2
replies
996
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can't update bioconductor 3.18
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2.1 years ago feifan • 0
3
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4
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2.9k
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Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 2.1 years ago by ★ 4.1k • written 2.1 years ago by • 0
1
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5
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1.8k
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ChIPpeakAnno annotatePeakInBatch output
ChIPpeakAnno
2.1 years ago ilaria.maurizio • 0
0
votes
6
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2.3k
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DESeq2 Normalization with 4 Groups
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2.1 years ago erika.maldonado-rosado • 0
46,694 results • Page 39 of 934
Recent ...
Replies
Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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