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Recent Replies
Answer: RNAseq coverage vs depth for transcript isoform expression?
by
Gordon Smyth
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See the exploration of isoform precision vs read length and sequencing depth in our paper: https://doi.org/10.1093/nar/gkad1167.
Our resul…
Comment: How to handle duplicated genes in TCGA data?
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txema.heredia
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Why does the tool require gene symbols and not ensembl ids? Is it retrieving information from somewhere else? If so, your best bet is to fi…
Comment: how to treat the replicates while performing WGCNA
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mavy
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Thank you so much for your response . Really appreciate it.
I will try the way you mentioned and will get back if I have any query
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
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hophuquy0944
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i have the same error, i used high performance computer, here is my code to set memory.
srun --nodes=1 --ntasks=1 --cpus-per-task=24 -…
Comment: Overlapping Ranges within Granges object
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Yes, `bedmap` will perform operations on one or two BED files.
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Apologies for resurrecting this post, but any idea what that functions "regions" paramater takes? Would it be a GRanges object? The documen…
Comment: How to handle duplicated genes in TCGA data?
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Ngrin
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Thanks @txema.heredia.The tool I am going to use only accepts gene symbols. This is the reason. So I cannot use ENS IDs.
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This is a rather small experiment, I don't know that you can establish a meaningful baseline for each patient with a single pre sample, and…
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@bk11 i changed this comment to an answer. if you disagree please let me know. thanks for sharing your knowledge. VAL
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
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Thanks for the input. Unfortunately, that didn't help either. I appreciate any other tips.
Thank you
Answer: GG Sankey plot
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bk11
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You need to change your data table into a 'long' format. You can do something like this-
GOs_childs_recursive <- GOs_childs_recursive …
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I use Trim Galore which automatically recognizes adaptors.
https://github.com/FelixKrueger/TrimGalore
Here is the script I am using for…
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There are plenty. `bbduk.sh` from BBMap suite (https://jgi.doe.gov/data-and-tools/software-tools/bbtools/bb-tools-user-guide/bbduk-guide/ )…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
bk11
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Please check out [in this link.][1]
[1]: https://github.com/jokergoo/ComplexHeatmap/issues/349
Comment: Reconstruction of locus, order contigs
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dthorbur
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[Here](https://www.biostars.org/p/9544689/) is a forum post that may answer your question.
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