Bioconductor MSGFplus

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peptide peptideidentification rTANDEM MSGFplus Alternatives

updated 2.3 years ago by shepherl 4.1k • written 2.3 years ago by vaddanki ▴ 10

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MSGFplus

4.5 years ago yueli7 ▴ 20

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msgfplus mac java

updated 6.9 years ago by Mike Smith ★ 6.6k • written 6.9 years ago by dgemoets • 0

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MSGFplus MSGFgui software error

9.4 years ago Owen.Leiser • 0

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Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm by James W. MacDonald 68k

``` library(org.Dm.eg.db) rn <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "SYMBOL","FLYBASE") ## ensure no NA values get propaga…

Comment: Discrepancies in normalised count data vs unnormalised by AMgroup • 0

Thank you for your explanation, that makes sense. Do you have any suggestions on how to deal with this issue? if it is an issue? especially…

Comment: Announcing GBCC 2025: The first-ever joint conference between Bioconductor and G by nytwordlehints • 0

I have always had a great fondness for games, so witnessing their transformation into animated versions is truly a delightful experience. […

Comment: FlowSOM is unable to create Output by EvangelinePope • 0

I will remember it, Thank you so much for sharing.

Answer: Limma suqeezeVar by Gordon Smyth 52k

I am not quite clear why you're not using the limma package directly, because it will compute all the variances and the df automatically fo…

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Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm

Deseq2 DE analysis of host-pathogen samples (model separately or jointly?)

Comment: Check removeBatchEffect effectiveness

Answer: Check removeBatchEffect effectiveness

A: what should I do with many zero counts from Salmon quantification

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