Bioconductor GOexpress

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GOexpress GO.db GOSemSim

3.1 years ago Chruut • 0

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GOexpress

updated 3.1 years ago by kevin.rue ▴ 350 • written 3.1 years ago by grolo • 0

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GOexpress

3.8 years ago jms2520 ▴ 10

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RNA-seq transcriptomics gene ontology gene expression GOexpress

updated 5.9 years ago by kevin.rue ▴ 350 • written 5.9 years ago by atorson • 0

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GOexpress heatmap gene ontology plot

updated 6.2 years ago by kevin.rue ▴ 350 • written 6.2 years ago by Antonio Campos • 0

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goexpress ExpressionSet GO_analyse

6.3 years ago rezashiralmohammad • 0

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GOexpress subset_scores <0 rows>

7.9 years ago sina.zboron • 0

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goexpress gopro

8.8 years ago Bogdan ▴ 670

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gene ontology goexpress

updated 8.9 years ago by kevin.rue ▴ 350 • written 8.9 years ago by mforde84 ▴ 20

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topgo biomart gene ontology goexpress pathway analysis

updated 9.6 years ago by kevin.rue ▴ 350 • written 9.6 years ago by Darya Vanichkina ▴ 130

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3.2k

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goexpress

updated 9.8 years ago by kevin.rue ▴ 350 • written 9.8 years ago by martin.hoelzer ▴ 20

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goexpress

updated 10.1 years ago by kevin.rue ▴ 350 • written 10.1 years ago by willj ▴ 30

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software error goexpress

updated 10.1 years ago by kevin.rue ▴ 350 • written 10.1 years ago by kcamnairb ▴ 10

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GOexpress deseq2 expressionset

10.2 years ago martin.hoelzer ▴ 20

14 results • Page 1 of 1

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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…

Answer: PTM analysis in LIMPA by Gordon Smyth 53k

For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…

Answer: problem reading bam files into nucleR by James W. MacDonald 68k

The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…

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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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