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1.1k
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Create design matrix for differential methylation analysis
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Deseq2, multifactor model design for comparing adult Mutant mouse versus pup Mutant mouse with normalization to the age difference of the Wildtype co…
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2.2 years ago ruba-mahmoud • 0
2
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902
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Remove duplicates of colData in TreeSummarizedExperiment
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updated 2.2 years ago by 43k • written 2.2 years ago by • 0
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DeSeq2 design fails (full model matrix is less than full rank)
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Adding chromosome numbers to the respective gene ids of DESeq2 output file
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DataFrame Construction With Non-standard Column
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Fatal error: Wrong thread calling 'RunFinalizers'
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2.2 years ago kthapa • 0
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''Model_Matrix'' error
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Dealing with multi-overlapping and multi-mapping reads
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How does DESeq2 calculate FPKM values when gene lengths are not supplied?
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SRAdb: Error downloading sqlite files
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Matching Variants Between Two VCF Objects
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how to save subsetted GDS file
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heatmap.2 - change column & row locations; angle / rotate
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Rgraphviz installation: DLL problem?
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Can I use EdgeR log2(cpm) instead of voom log2(cpm) to be analyzed as microarray data?
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News: Bioconductor 3.18 db0s, OrgDbs, and TxDbs now available
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2.2 years ago kayla.interdonato ▴ 160
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filtering out lowly expressed genes by groups
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Why dbConnect GEOmetadb_demo.sqlite shows some information while dbConnect GEOmetadb.sqlite shows no information
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Manual creation of qPCRset does not work
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Deseq2, enrichGO and ensembl ID
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updated 11 months ago by 68k • written 2.2 years ago by • 0
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2.2 years ago hanna.g • 0
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What MetaPhlAn3 database was used in cMD 3?
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how to adjust other conditions when calling DEGs by DESeq2
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Should I use CPM or Voom transformed values for downstream analysis?
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2.2 years ago petertam1343 • 0
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Software Compatibility Issue Between phyloseq and lme4 Packages
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2.2 years ago Zijun • 0
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Can I transform already normalized rna-seq data with Z-score?
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diffbind analyze for wheat
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How to compared two groups out of twelve in DESeq2
DESeq2
updated 2.2 years ago by 68k • written 2.2 years ago by • 0
46,693 results • Page 42 of 934
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Comment: Bioinformatician at the Lausanne University Hospital by eja.ger.m • 0
For individuals looking to improve communication and collaboration in demanding medical or research environments like the Genetic Medicine …
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.
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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