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Forum: Bioinformatics 03-25-2019, 08:28 AM
Replies: 1
Views: 1,110
Posted By luminasapientiae
There is a problem with this kind of analysis...

There is a problem with this kind of analysis from statistical point of view. (more than two groups)
In practice, DESEq2 use a chi-squared like strategy and a binominal test, the analysis is better...
Forum: Bioinformatics 03-25-2019, 08:20 AM
Replies: 1
Views: 758
Posted By luminasapientiae
Why you are using Python? You can look for...

Why you are using Python?
You can look for Biopython module. There is a function to import your seq and alignment.

The same can be made (with more options) in linux terminal w/ STAR algorithm.
Forum: Bioinformatics 03-25-2019, 08:14 AM
Replies: 2
Views: 584
Posted By luminasapientiae
I think we need more information. What is the...

I think we need more information.
What is the design of your study? why HTSeq?
I never worked with HTSeq before but i have experience with edgeR, DESeq2 and NOISeq, but i can be more useful if i...
Forum: Bioinformatics 03-25-2019, 08:07 AM
Replies: 2
Views: 527
Posted By luminasapientiae
Hi titti First of all, try to consult the...

Hi titti
First of all, try to consult the bioconductor repository to find a package that is suitable for your needs (https://www.bioconductor.org) as you are new to bioinformatics, there is support...
Forum: Bioinformatics 09-16-2017, 05:37 PM
Replies: 0
Views: 967
Posted By luminasapientiae
Exclamation Plotting DGE on R

Good night!

I'm trying to make a plot of my DGE through R from NOISeq + ComplexHeatmap packages.
I have two dataframes, on the first i have the samples as columns and transcripts as rows. On the...
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