Bioconductor Ncbi

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1.2k

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Rstudio cDNA ensembldb NCBI

2.0 years ago R_Page • 0

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3.6k

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RStudio convert ensembldb NCBI

updated 14 months ago by MauriAndres • 0 • written 2.1 years ago by j_denton • 0

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1.0k

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getGFF NCBI biomartr biomaRt

4.3 years ago Matan G. ▴ 60

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1.6k

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MakeOrgPackageFromNCBI NCBI SQL AnnotationForge

updated 5.6 years ago by James W. MacDonald 68k • written 5.6 years ago by chefer • 0

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2.1k

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ontology edger limma ncbi organism package

updated 5.8 years ago by Gordon Smyth 53k • written 5.8 years ago by babak.loghmani ▴ 20

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2.8k

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rsubread ncbi GRCh38 hg38

updated 9.1 years ago by Wei Shi ★ 3.6k • written 9.1 years ago by jan.soderman • 0

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1.8k

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ncbi sra search

9.9 years ago massacomgrao • 0

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4.7k

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ncbi refseq maketxdbfromgff fetchExtendedChromInfoFromUCSC genomeinfodb

updated 9.9 years ago by Hervé Pagès 16k • written 9.9 years ago by gokcen.eraslan ▴ 10

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4.0k

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microarray normalization ncbi

updated 10.6 years ago by James W. MacDonald 68k • written 10.6 years ago by pankajnarula84 ▴ 20

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1.6k

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annotate ncbi url

11.0 years ago reuma • 0

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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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