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Recent Replies
Comment: RNASEQ differential expression of paired samples
by
hans
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Thank you,
The tutorial seems to provide the right solution
Comment: problem with no replicate data analysis
by
Bioinformatics1
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it is my pleasure to communicate with you.
Do you have an example of no replicate data for RNA seq analysis to share with me? RNA seq lab …
Comment: Error in plot-vcfstats
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samuelandjw
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Install the absent file. See https://pkgs.org/download/tex(memoir.cls)
Comment: Using vcftools and got Error: Unknown option: --max-missing
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samuelandjw
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Try bcftools instead. The author of vcftools has ceased updating vcftools for a while.
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Mensur Dlakic
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Have you tried adding:
aligner.end_open_gap_score = -10
aligner.end_extend_gap_score = -1
Comment: plot-vcfstats
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Please see my edited answer. If my answer helps you, please consider accepting it.
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Thank you zengjingyu and @sbstevenlee for your help and explanations. I guess as @sbstevenlee explained if I remove all the homozygous geno…
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Please use *KEGGprofile* (I just posted an answer here: https://support.bioconductor.org/p/9138854/), or some other pathway analysis progra…
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Thank you for the confirmation.
Would there be any reason the READs columns are provided too ?
I'm thinking maybe for normalizing the UMI…
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Actually I wrote page 24 of the edgeR User's Guide, but I can't give you customized advice specific to your dataset. If you know nothing at…
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Gordon, What do I add instead of the housekeeping index? I only have data, I don't know how to add the housekeeping gene. Please read page …
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The edgeR User's Guide (to which you link) has an entire section called "What to do if you have no replicates". That section enumerates all…
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How can I annotate the pathways associated with the genes labeled above?
Since they are very small set of genes, I only want to annotate t…
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Your understanding is correct. The reads are the counts of all reads mapping to a given gene. UMIs is the number of distinct UMIs, and ther…
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