updated 5.8 years ago by
Habil Zare
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written 5.8 years ago by
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Comment: using DESeq2 for ATAC analyses
by
eric.kern13
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10
To expand on what's written here: deseq2 can achieve roughly constant variance $C$ across genes by setting the per-gene dispersion $\phi_j$…
Comment: TPM normalization starting with read counts
by
ATpoint
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1.4k
Neither edgeR nor DESeq2 output TPM directly. TPM is easy to calculate though if counts and appropriate length info is available (https://s…
Comment: error running UniProt.ws
by
davi.vuko
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0
I still get the same result as above, should running BiocManager::install() do the trick?
Answer: Adding custom transcript to Salmon index
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ATpoint
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1.4k
Yes, you would add the sequence to the reference transcriptome that is used for the gentrome construction. Simply make a separate fasta fil…
Comment: IsoformSwitchAnalyzeR package on mouse data
by
bpshtiwan
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10
Hello Ryan,
Also, I am not able to find esemble file that has haplotype info in it.
Kindly, have you solved the problem?
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