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RNA-seq DNA-seq ATAC-seq proteomics microbiome Job

5.2 years ago lhuang7 ▴ 50

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Comment: Issue when attempting to use output from DECIPHER IDtaxa (pr2 V5) with dada2/phy by Daniel • 0

Two things: - PR2 version 5.0 and above have 9 levels and not 8 (up to version 4.14). So the code should be: > ranks.pr2 <- c("domain",…

Comment: Removing UTR from GTF for gene quantification by Michael Love 43k

Yes, we need to discourage tagging software packages arbitrarily on Bioconductor support site. This sends emails to the package maintainers…

Comment: Using tximport for kallisto aligned TOIL data by Nicholas • 0

Great, thanks. I have the transcriptome version and the corresponding GTF file for the ENSEMBL transcriptome version. Is there a way to do …

Answer: affy::rma results doesn't match with ncbi website by James W. MacDonald 68k

Please note that RMA is a method intended to normalize and summarize a set of samples rather than a single sample (it doesn't make much sen…

Comment: Problem installing package TxDb.Mmusculus.UCSC.mm10.knownGene by shepherl 4.1k

Can you try `BiocManager::install("TxDb.Mmusculus.UCSC.mm10.knownGene", type="source")`

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