Bioconductor Degs

Showing : degs • reset

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29k

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deseq2 rna-seq DEGs cooks cutoff

written 6.9 years ago by aishu.jp ▴ 30

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1.1k

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DESeq2 Complicated.contrast DEGs

updated 3.3 years ago by Michael Love 43k • written 3.3 years ago by Mike • -60

-6

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1.3k

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complicated.contrast edgeR DEGs

3.3 years ago Mike • -60

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1.4k

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edgeR DEGs

updated 3.7 years ago by Gordon Smyth 53k • written 3.7 years ago by RR • 0

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1.2k

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edgeR DEGs DESEQ2 RNASeqData

3.9 years ago Raito92 ▴ 60

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1.4k

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RNAseq edgeR DEGs

updated 3.8 years ago by Gordon Smyth 53k • written 4.4 years ago by Ming ▴ 380

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3.8k

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DESeq2 DEGs

4.4 years ago Ming ▴ 380

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9.2k

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RNASeq EnhancedVolcano DEGs

updated 4.5 years ago by Kevin Blighe ★ 4.0k • written 4.5 years ago by robledoj13 • 0

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1.5k

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DESeq2 Nullcook'svalues 2x3 DEGs

4.7 years ago andreia ▴ 10

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2.1k

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heatmaps DEGs PCA

updated 4.8 years ago by Kevin Blighe ★ 4.0k • written 4.8 years ago by MOHAMMAD • 0

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1.6k

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DEGs DESeq2

5.0 years ago • updated 4.9 years ago 2021yearsold • 0

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1.3k

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mircomb mrna mirna degs interaction

5.5 years ago andreia ▴ 10

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1.2k

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deseq2 mircomb degs dems

updated 5.5 years ago by Michael Love 43k • written 5.5 years ago by andreia ▴ 10

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1.3k

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clusterProfiler Bioconductor R DEGs

5.5 years ago tpm • 0

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3.7k

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edger DEGs normalization

updated 5.9 years ago by Gordon Smyth 53k • written 5.9 years ago by anikng ▴ 10

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1.5k

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edger DEGs

5.9 years ago anikng ▴ 10

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1.5k

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deseq2 rrpp DEGs RNAseq

updated 6.1 years ago by Michael Love 43k • written 6.1 years ago by gmchaput • 0

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5.4k

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heatmap DEGs RNAseq DESeq2

updated 6.4 years ago by mikhael.manurung ▴ 280 • written 6.4 years ago by danikadigiacomo • 0

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1.7k

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edger degs paired design

updated 7.5 years ago by Gordon Smyth 53k • written 7.5 years ago by takumima ▴ 10

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2.8k

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limma heatmap DEGs

updated 7.9 years ago by Gordon Smyth 53k • written 7.9 years ago by lawarde.ankita1 ▴ 30

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1.5k

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edgeR DEGS common disperion

updated 8.3 years ago by Aaron Lun ★ 29k • written 8.3 years ago by baus87 • 0

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3.5k

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limma microarray DEGs p values lfc

8.5 years ago rkp • 0

22 results • Page 1 of 1

Recent ...

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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

Awards • All

Popular Question to Dario Strbenac ★ 1.6k

Scholar to Nikos Ignatiadis ▴ 180