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ht-seq
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Dealing with multi-overlapping and multi-mapping reads
RNA-seq
featureCounts
ht-seq
updated 22 months ago by
swbarnes2
★ 1.0k • written 22 months ago by
ag1805x
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Comment: edgeR - how to convert DGELRT and other classes to .csv files
by
Benjamin
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Thank you Aaron. I am wondering if you know how to write the .csv file with both the topTags (statistical analysis) and the original counts…
Answer: error with: .make_splicings <- function(exons, cds, stop_codons=NULL)
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James W. MacDonald
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That's a very old build, and an old version of the GFF standard. You would be better off getting something more recent. ``` > txdb <- m…
Answer: RPX PXDataset error
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Sakimmd7
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Hi Gianluigi, I am doing the same course currently and stumbled upon the same issue. After trying out different things, I realised the …
Answer: CPM after RUVseq
by
James W. MacDonald
59k
The normalizedCounts aren't logCPM. They are, as advertised, normalizedCounts. ``` > example("RUVr") <snip> RUVr> head(normCounts(seq…
Comment: Merging two plated in R
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James W. MacDonald
59k
Heh. I know how you feel. Can't tell you how many times I've sat here staring at some code thinking 'why does this not work!?!' I blame R, …
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Comment: Merging two plated in R
Answer: Merging two plated in R
Answer: Merging two plated in R
A: Can we use glmQLFit instead of glmFit and then glmLRT in edgeR
A: Can we use glmQLFit instead of glmFit and then glmLRT in edgeR
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