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MSnbase package, Error in downloading data file "PXD000001" from PRIDE Repository by pxget function
MSnbase Bioconductor PRIDE rpx PXDataset
updated 2.7 years ago by 1.5k • written 2.7 years ago by ▴ 10
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Mass Spectrometry data analysis
MassSpectrometry PRIDE
updated 7.0 years ago by 1.5k • written 7.0 years ago by • 0
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Comment: Error: package or namespace load failed for ‘clusterProfiler’: object ‘get_fun_f by Vince Schulz ▴ 60
This works for me. ``` packageurl <- "https://cran.r-project.org/src/contrib/Archive/rvcheck/rvcheck_0.1.8.tar.gz" install.packages(packa…
Comment: Interpretation of Log 2 fold change by adeler001 • 0
Thank you much James
Answer: Getting Bioconductor genome wide annotation for Candida auris by James W. MacDonald 58k
There isn't an `OrgDb` for C. auris on the `AnnotationHub`, so you will need to generate one yourself, using `makeOrgPackageFromNCBI` in th…
Comment: Getting Bioconductor genome wide annotation for Candida auris by Javan Okendo • 0
@James I am using clusterProfiler: https://learn.gencore.bio.nyu.edu/rna-seq-analysis/gene-set-enrichment-analysis/ for the enrichment anal…
Comment: Error: package or namespace load failed for ‘clusterProfiler’: object ‘get_fun_f by Chan • 0
Hi, I'm having a same problem with the 4.0.3 version of R. How did you download the older version 0.1.3 of rvcheck? I tried multiple ways.
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Comment: Getting Bioconductor genome wide annotation for Candida auris
Answer: Getting Bioconductor genome wide annotation for Candida auris
Answer: Error in .order_seqlevels(chrom_sizes[, "chrom"]) : !anyNA(m32) is not TRUE
Answer: Error in .order_seqlevels(chrom_sizes[, "chrom"]) : !anyNA(m31) is not TRUE
Error in .order_seqlevels(chrom_sizes[, "chrom"]) : !anyNA(m31) is not TRUE
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