User: caro-ca

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caro-ca20
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1 year, 8 months ago
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Posts by caro-ca

<prev • 83 results • page 1 of 9 • next >
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Comment: A: Understanding Variant Effect Predictor results
... I am still trying to understand the results. S. cerevisiae has ~6000 genes and according to the summary statistics, there are 1553 genes overlapping with a transposon sequence. This is approximately 25 % of genes been affected by transposons. How can there be so many genes being affected if the majo ...
written 10 hours ago by caro-ca20
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Comment: C: Understanding Variant Effect Predictor results
... Thank you for your response, and do you have annotations for regulatory elements in yeast? ...
written 19 hours ago by caro-ca20
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Understanding Variant Effect Predictor results
... I am studying the effect of transposable elements in Saccharomyces cerevisiae populations. The outcome I have from Variant Effect Predictor is as follow: Category Count Variants processed 414 Overlapped genes 1553 Overlapped transcripts 1553 Overlapped regulatory ...
ensembl vep variant effect predictor written 1 day ago by caro-ca20
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Comment: C: Does VEP use alternative splicing in their calculations?
... My apologies. I already edited my post. ...
written 9 days ago by caro-ca20
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Does VEP use alternative splicing in their calculations?
... I am studying the consequences of transposable elements (TEs) in multiple S. cerevisiae populations. For this, I am using the web tool Variant Effect Predictor (VEP) from Ensembl. In the output, the number of overlapped genes is the same as for the overlapped transcripts, therefore my question is i ...
ensembl vep variant effect predictor written 9 days ago by caro-ca20 • updated 8 days ago by Emily_Ensembl21k
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Comment: C: Difference Between Gene Expression And Transcript Expression
... Does VEP detect alternative splicing? I am asking because I have used VEP for three experiments and in all of them I got the same number of genes and transcripts where the TE variant overlapped. Thank you for your help. #Ensemble #VEP ...
written 9 days ago by caro-ca20
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(Closed) tkinter window doesn't appear on Visual Studio for Mac
... I am practicing classes with GUI and tkinter on Visual Studio for Mac. My piece of code is: #!/usr/bin/env python3 import tkinter as tk class AddGUI (tk.Frame): def __init__ (self): tk.Frame.__init__(self) self.master.title('adding one') ...
visual studio python3 tkinter written 8 weeks ago by caro-ca20
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Comment: C: Is there a software that enables exploration of patterns and associations in hea
... On the other hand, I could solve the problem. I found a [link][1] to export the matrix from heatmap2. Thank you anyway. [1]: https://support.bioconductor.org/p/48624/ ...
written 4 months ago by caro-ca20
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Comment: C: Is there a software that enables exploration of patterns and associations in hea
... I made a normalized pairwise comparison of the presence and absence of a specific structural variant in thousand isolates. The challenge is to extract the clustered matrix from heatmap.2 and plot it in excel to easily know what is the sample on the x and y-axis. This is the reason why I considered u ...
written 4 months ago by caro-ca20
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Is there a software that enables exploration of patterns and associations in heatmaps?
... Dear, I want to know if there is a software that can zoom a portion of my created heatmap as I do not want to show a complete visual representation of the heatmap, instead, I would like to plot a specific region/cluster in my heatmap for an easier explanation of my data. I know there is an incredib ...
heatmap ng-chm data visualization written 4 months ago by caro-ca20 • updated 3 months ago by Biostar ♦♦ 20

Latest awards to caro-ca

Popular Question 4 months ago, created a question with more than 1,000 views. For MUMmer aligments: How to visualize better the plots?
Supporter 10 months ago, voted at least 25 times.

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