Bioconductor UTRs

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genomeintervals UTRs exons CDS GenomicRanges

updated 6.3 years ago by Michael Lawrence 11k • written 6.3 years ago by rubi ▴ 110

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Comment: Help with model.matrix and creating the right contrast matrix for limma by Gordon Smyth 48k

> Does this mean there is an anova test comparing the mean expression of each gene for each contrast specified (LvsC_m5 and HvsC_m5)? So wh…

Comment: TPM to raw counts by bella.johnson.2022 • 0

I know this is a bit of an old thread, but I used `'tximport'` to take my TPM output from Salmon and get the raw counts to then run DESeq2 …

Comment: Ensembl down??? by James W. MacDonald 64k

Yes, you have already said that. The length of the lists isn't material to this discussion, but the nature of the IDs is. I have no idea wh…

Comment: Ensembl down??? by bas_work ▴ 20

Thanks, I'm now exploring these. I want to map external gene names (long lists, actually) to human HGNC symbols and Ensembl gene IDs...

Comment: Different results from blockwiseModules and blockwiseConsensusModules individual by James W. MacDonald 64k

Why do you think the modules for an individual block should be remotely similar to the consensus modules generated using all the blocks? Di…

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Comment: Ensembl down???

Comment: Problem loading HDF5Array in R 4.3.2

Answer: gseGO input list

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