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Recent Replies
Comment: Heatmap for visualizing the differentially expressed genes in RNA-seq data
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Thank you @rfran010 and @jaredandrews07 for your comments. I have used the DEGs only for my heatmap. The TPM normalized values were calcula…
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Hello Geno,
You dont understand how much I appreciate you, but yes I used featureCounts my trimming is correct my leniancy on those trim f…
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Your code looks ok (although I can't check the data manipulations that are specific to your own dataset). The DE analysis you have done is …
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> I looked online the according to everything the gff from miRBASE should have been compatible.
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Hi, just wanted to ask if you've got any answers?
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As awlays Geno, thank you so much for helping, although I thought the same thing, I looked online the according to everything the gff from …
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You can't mix and match genome sequence and annotations. If you used a prebuilt bowtie index from NCBI then you will need to find an annota…
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Generally, fold-changes can be hard to distinguish from TPMs between samples when TPM variability between genes is large. Gene-wise scaling…
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Generally, they are equivalent. They both are designed to handle spliced reads (e.g. RNA-seq) well.
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[M::mm_idx_gen::73.687*1.32] collected minimizers
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Thanks for the prompt response!
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Is there anything in `ragtag.scaffold.asm.paf.log` file?
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Yes, from my laptop I do the final reports with graphs, etc and all the code is source controlled with git. I am not computing anything on …
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