Omics Playground

Welcome to the Omics Playground community forum! Please use this forum to ask help, make suggestions,

Hey Ivo, many thanks for your answer. Just so I understand correctly: I have added a 3rd column to

idem Chris

I have a similar question. Previously, I used OmicsPlayground version 2 to analyze my proteomics data

Heya, I am new to proteomics. Wanted to know some details on the abundance file. We have been

Thanks Ivo! This information is just what I was looking for. On Monday, January 13, 2025 at 2:35:30

Yes. You could append the phospho site position to your probe as AAAA_123, or add a second column in

Thanks for reporting this. This is because for efficiency we have downsampled your data for creating

Hi. True. Currently duplicated genes/features (rows) are merged by averaging the values. For now, as

Hi C.Moritz, Looking at your data, you are most probably dealing with "normalized relative

Thanks. We have not yet such a feature. But it is a good suggestion and probably we will add it in

The heatmap clusters genes by hierarchical clustering. The number of genes per group is dependent on

Hi. MaxMedian is a variant of "median normalization", ie all medians per sample are

Dear User, The current version v3.4.4 only allows for batch correction by providing a batch column in

Thanks Mauro. I saw the conversation in github. sounds good. On Tuesday, April 18, 2023 at 7:45:53 PM

Dear User, There is indeed an issue with genesets. We opened an ticket related to this. To give

Dear User, We do not have yet support for bacterial species, but that development is in the roadmap.

Dear User, Thanks for using OmicsPlayground! Could you kindly give more details about this ocurrence,

Hi Morgane, I think you are referring to the paper "Testing significance relative to a fold-

Perfect, good to hear that it's working! I believe 2.8.17 was one of the last beta test versions,

Dear User, Thanks for your message, you could also check the text-based documentation here: https://

Hi, I'm trying to upload new data, but I keep getting disconnected. The error message says "

Hi I an not get any images in Cluster features/Gene map (a). There might be a rendering problem in

[Morgane M. email 21.3.2023] Hi, In addition to this first point, I was wondering how I can analyse

[Shahab email 14.3.3023] The older version had two options for generating heatmaps while the new one

[Shahab, email 13.3.2023] the older version had two options for generating heatmaps while the new one

resolved. On Friday, 10 March 2023 at 01:00:27 UTC+1 BigOmics Analytics Team wrote: submitted issue

Hi Daniel, Celltype estimation/deconvolution is indeed one of the strong functionalities in

Hi Marian, You're hitting the right questions and answers. It seems your experiments need batch

Thank you for your email! There is no method of choice for batch correction, our approach is to

At the moment not directly. You would need to extract the count matrix and metadata (sample