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BigOmics Analytics

3/19/20

Re: LATEST NEWS & ANNOUNCEMENTS

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

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Re: LATEST NEWS & ANNOUNCEMENTS

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

3/19/20

Sep 29

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Sep 29

Victoria Hendrick

Jul 6

Vents /Air duct and Dryer vent cleaning

#Discountoffer‼️ Hello Neighbors! I'm Booking a vent cleaning ($250 to $179 if 3 homes ). We'

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Vents /Air duct and Dryer vent cleaning

#Discountoffer‼️ Hello Neighbors! I'm Booking a vent cleaning ($250 to $179 if 3 homes ). We'

Jul 6

Jasper Verswyvel

Jun 5

Drug connectivity analysis

I am analyzing bulk RNA seq of 2 different cell conditions (Cisplatin-induced senescent A549 cells

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Drug connectivity analysis

I am analyzing bulk RNA seq of 2 different cell conditions (Cisplatin-induced senescent A549 cells

Jun 5

Philipp Brunnbauer, Ivo Kwee3

4/3/25

Paired Statistics

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

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Paired Statistics

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

4/3/25

4/2/25

How can you upload pgx files into Omics Playground?

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How can you upload pgx files into Omics Playground?

4/2/25

2/4/25

log/linear detection

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

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log/linear detection

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

2/4/25

Philipp Brunnbauer

1/28/25

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

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

1/28/25

Prisca, Ivo Kwee3

1/13/25

Normalized expression values in Data Table?

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

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Normalized expression values in Data Table?

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

1/13/25

Chris Gonzales, Ivo Kwee2

1/13/25

OmicsPlayground and Phospho-proteomic analysis?

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

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OmicsPlayground and Phospho-proteomic analysis?

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

1/13/25

11/7/24

histogram changed

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

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histogram changed

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

11/7/24

11/7/24

Keeping duplicated genes separate

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

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Keeping duplicated genes separate

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

11/7/24

11/7/24

how to treat standard-normalized data (aka. relative expression as percentage)

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

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how to treat standard-normalized data (aka. relative expression as percentage)

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

11/7/24

Simao P. B. Teixeira, Ivo Kwee2

11/7/24

Percentage of variation in PCA

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

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Percentage of variation in PCA

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

11/7/24

Murat Akand, Ivo Kwee2

11/7/24

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

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

11/7/24

Chris Gonzales, Ivo Kwee2

11/7/24

Max median normalization (MaxMedian)

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

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Max median normalization (MaxMedian)

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

11/7/24

Christophe Deben, Mauro Masiero2

8/20/24

Batch Correction

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

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Batch Correction

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

8/20/24

Shahab Mirshahvaladi, Mauro Masiero3

11/16/23

setting the FC cutoff for differential expression analysis

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

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setting the FC cutoff for differential expression analysis

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

11/16/23

Sara Ribeiro, Mauro Masiero2

8/23/23

V3_Genesets upload

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

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V3_Genesets upload

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

8/23/23

marios mat, Mauro Masiero2

8/4/23

Support for bacterial strains

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

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Support for bacterial strains

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

8/4/23

franp...@hotmail.com, Mauro Masiero2

7/13/23

Error when loading data

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

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Error when loading data

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

7/13/23

BigOmics Analytics Team, Ivo Kwee2

5/22/23

Question on FDR testing with logFC threshold

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

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Question on FDR testing with logFC threshold

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

5/22/23

Sara Ribeiro, Mauro Masiero4

5/15/23

Data upload issue

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

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Data upload issue

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

5/15/23

Andreea C, Mauro Masiero2

5/12/23

Presenting Proteomics Data

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

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Presenting Proteomics Data

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

5/12/23

4/17/23

Data upload issue

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

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Data upload issue

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

4/17/23

Shahab Mirshahvaladi

3/21/23

problem in Cluster features in Beta Version

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

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problem in Cluster features in Beta Version

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

3/21/23

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