User: avelarbio46

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Posts by avelarbio46

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Comment: C: open-cravat: variant annotation tool
... Hello slcrick! I would like to know if it is possible to extract variants from selected variant annotators with custom information, for example, frequency and gene name. I know that I can download manually all databases, but it is simpler if I can use your tool because it is up-to-date and I don't ...
written 5 months ago by avelarbio460
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Comment: C: List of genes with common false-positives
... You are correct. Just because there is a high ammount of mutations doensn't mean they are not there, but that probably they have no functional impact whatsoever. That's what I mean! They are the usual suspects for no functional impact, even with high mutation rates. ...
written 6 months ago by avelarbio460
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Comment: C: List of genes with common false-positives
... Edited question. I basically mean false positive calls for variants. For example, SNPs, mutations and etc. ...
written 6 months ago by avelarbio460
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List of genes with common false-positives
... Hello everyone! I was hunting for a list of known false positive genes for SNPs and variants (highly variable genes). I know about many, such as TNN, mucins and olphatory proteins, but I was hoping that there might be a list of genes that are known to be highly mutated without any specific phenotyp ...
ngs false-positive written 6 months ago by avelarbio460 • updated 4 months ago by Biostar ♦♦ 20
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Comment: C: Pooling samples for RNA
... Not DE only, but many other analyses such as mutation, isoform and all we can do with RNA-seq. Could you expand the explanation of why variation between normal samples is important? ...
written 10 months ago by avelarbio460
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Pooling samples for RNA
... Hello everyone! I want to do a RNA-seq for 30 cancer patients that can be divided into two groups of 150. Each patient have normal and cancerous tissue paired. The problem is that we have money ONLY for 36 samples in total. I was thinking, at first, to use 3 normals for each group of 15 as a way t ...
illumina cancer rna-seq pool written 10 months ago by avelarbio460
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Comment: A: How to create a mutation landscape (waterfall) plot with GenVisR
... How can I change the gridlines? I tried with mainLayer = theme(.....), but major grid is showing in the middle of the divisions, and minor grid is not showing at all. I just want to change the grid lines of the main graph for black lines with specific sizes! ...
written 20 months ago by avelarbio460
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Comment: A: How to create a mutation landscape (waterfall) plot with GenVisR
... How can I change the gridlines? I tried with mainLayer = theme(.....), but major grid is showing in the middle of the divisions, and minor grid is not showing at all. I just want to change the grid lines of the main graph for black lines with specific sizes! ...
written 20 months ago by avelarbio460

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