Andromeda Help

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Manuel Fernandez

May 12

MaxQuant Task .Net Runtime Error

Installed a pc from scratch and tried to run a LFQ analysis in MaxQuant 1.6.8. It crashed with a .

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MaxQuant Task .Net Runtime Error

Installed a pc from scratch and tried to run a LFQ analysis in MaxQuant 1.6.8. It crashed with a .

May 12

chenna...@gmail.com, … mayank gupta7

Jan 3

Perseus annotation download

You can try this link https://datashare.biochem.mpg.de/s/qe1IqcKbz2j2Ruf On Wednesday, 13 November

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Perseus annotation download

You can try this link https://datashare.biochem.mpg.de/s/qe1IqcKbz2j2Ruf On Wednesday, 13 November

Jan 3

chenna...@gmail.com

12/1/21

MaxQuant label-free quantification

Hi, When I use MaxQuant for the LFQ analysis. I found some proteins from my experimental sample have

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MaxQuant label-free quantification

Hi, When I use MaxQuant for the LFQ analysis. I found some proteins from my experimental sample have

12/1/21

11/26/21

MaxQuant Version 2.0.3.0

I tried to analyzed my files, it started but i got crashed every time can anybody tell what should be

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MaxQuant Version 2.0.3.0

I tried to analyzed my files, it started but i got crashed every time can anybody tell what should be

11/26/21

Low Teck Yew, Inês Caramelo2

11/11/21

Protein ID in new version of MaxQaunt

Hello, I have never used a previous version but my data from TOF 6600 is getting a really low

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Protein ID in new version of MaxQaunt

Hello, I have never used a previous version but my data from TOF 6600 is getting a really low

11/11/21

Sunwoo Lab, … Siena Barton3

11/5/21

Maxquant dotnet problem

Hi, I found that deleting and re-downloading Maxquant after installing .NET worked. If I use the

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Maxquant dotnet problem

Hi, I found that deleting and re-downloading Maxquant after installing .NET worked. If I use the

11/5/21

Ekaterina Vansovich

10/26/21

Andromeda stand alone version

Hey everyone, does anyone know if andromeda's stand-alone version is still supported? and if yes,

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Andromeda stand alone version

Hey everyone, does anyone know if andromeda's stand-alone version is still supported? and if yes,

10/26/21

Ekaterina Vansovich

10/5/21

isobarQuant with the Maxquant search engine

Hi everyone, I'm new at working with MS data and I hope maybe someone more experienced could help

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isobarQuant with the Maxquant search engine

Hi everyone, I'm new at working with MS data and I hope maybe someone more experienced could help

10/5/21

9/28/21

adjacent fraction for MBR

Hi I do not know which fractions were adjacent when using MBR, what can I do? Thanks

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adjacent fraction for MBR

Hi I do not know which fractions were adjacent when using MBR, what can I do? Thanks

9/28/21

9/28/21

adjacent fraction for Match between runs

Hi For MBR, "Matching is performed between the same and adjacent fractions if fraction numbers

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adjacent fraction for Match between runs

Hi For MBR, "Matching is performed between the same and adjacent fractions if fraction numbers

9/28/21

8/23/21

LFQ MQ 2.0.1.0 vs LFQ MQ 1.6.5

Hi, I tried MQ 2.0.1.0 for LFQ analysis and I noticed that there are different parameters to define

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LFQ MQ 2.0.1.0 vs LFQ MQ 1.6.5

Hi, I tried MQ 2.0.1.0 for LFQ analysis and I noticed that there are different parameters to define

8/23/21

8/20/21

Maxquant silac analysis for TIMS-TOF data

Hi all, I'm trying to figure out how to analyze in SILAC-quantification mode data from the Bruker

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Maxquant silac analysis for TIMS-TOF data

Hi all, I'm trying to figure out how to analyze in SILAC-quantification mode data from the Bruker

8/20/21

Manuel Ivan Villalobos Solis

8/12/21

Values in Post-hoc Tukey's results

Hi everyone, I am comparing results that I get from doing a Tukey's test in Perseus for

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Values in Post-hoc Tukey's results

Hi everyone, I am comparing results that I get from doing a Tukey's test in Perseus for

8/12/21

Alejandro Cohen

7/9/21

Peptide Missing?

Hi MQ people, I'm doing a quick comparison for human LFQ data I get from .raw files (QExactive)

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Peptide Missing?

Hi MQ people, I'm doing a quick comparison for human LFQ data I get from .raw files (QExactive)

7/9/21

6/28/21

where are the settings for crosslinking?

Hi, I have downloaded Maxquant 2.0.1.0, but there is no settings for crosslinking. I think it should

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where are the settings for crosslinking?

Hi, I have downloaded Maxquant 2.0.1.0, but there is no settings for crosslinking. I think it should

6/28/21

Kasandra Pedersen

6/27/21

Normalization in Perseus

Hi, maybe someone can explain the normalization step "subtract" in persues In the

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Normalization in Perseus

Hi, maybe someone can explain the normalization step "subtract" in persues In the

6/27/21

Jared Churko, Nathaniel Jorgenson2

6/23/21

MaxQuant crashing Thread?

I am having the same issue, but it is only with certain files. Did you find any solution to the

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MaxQuant crashing Thread?

I am having the same issue, but it is only with certain files. Did you find any solution to the

6/23/21

4/28/21

identifying proteins that are very similar in the sequence.

Hi everyone, I have a problem with the identification of highly similar proteins in MaxQuant. for

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identifying proteins that are very similar in the sequence.

Hi everyone, I have a problem with the identification of highly similar proteins in MaxQuant. for

4/28/21

4/22/21

advice on computer specs

I'm hoping to set up a computer for MaxQuant database searching. Any advice on which computers or

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advice on computer specs

I'm hoping to set up a computer for MaxQuant database searching. Any advice on which computers or

4/22/21

Kedric Milholland, … Rachael Barry8

3/5/21

MaxQuant 1.6.15.0 gives error after hitting start.

Thank you! That worked On Friday, 5 March 2021 at 11:57:23 UTC fernando...@gmail.com wrote: Hi

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MaxQuant 1.6.15.0 gives error after hitting start.

Thank you! That worked On Friday, 5 March 2021 at 11:57:23 UTC fernando...@gmail.com wrote: Hi

3/5/21

Kenton Chao, Mohammed Ghalib2

1/26/21

how to track the error message?

I am also facing the same problem except I was running a simple LFQ run and am not able to get the

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how to track the error message?

I am also facing the same problem except I was running a simple LFQ run and am not able to get the

1/26/21

Madhumeeta Chadha

1/25/21

New MQ user facing error in feature detection

Hi all, I am using MQ 1.6.17 to process SCIEX.wiff files. However, it stops at the feature detection

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New MQ user facing error in feature detection

Hi all, I am using MQ 1.6.17 to process SCIEX.wiff files. However, it stops at the feature detection

1/25/21

Mariana Schuster

1/19/21

Perseus error: Failed to read session potentially due to version mismatch

Hi! Trying to open a session from collaborator. Is there a way to solve the version mismatch issue?

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Perseus error: Failed to read session potentially due to version mismatch

Hi! Trying to open a session from collaborator. Is there a way to solve the version mismatch issue?

1/19/21

11/21/20

Perseus grouping

Hi I am quite new to Perseus, I have only 2 group with 24 samples as control and 7 treated samples. I

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Perseus grouping

Hi I am quite new to Perseus, I have only 2 group with 24 samples as control and 7 treated samples. I

11/21/20

9/14/20

Index was outside the bounds of the array.

I'm trying for a while to run an breast cancer analysis generated from a Triple TOF 5600. but I

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Index was outside the bounds of the array.

I'm trying for a while to run an breast cancer analysis generated from a Triple TOF 5600. but I

9/14/20

7/22/20

Maxquant on linux wont write txt folder

Hi I am trying to run maxquant on HPC so I am generating my mqpar file from my personal computer, it

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Maxquant on linux wont write txt folder

Hi I am trying to run maxquant on HPC so I am generating my mqpar file from my personal computer, it

7/22/20

rim.z...@phystech.edu, … ling zhong3

7/15/20

Could Stand-alone Andromeda use mzXML or mgf??!!

The APL to MGF converter has stopped working. Do you know any current working converter? Thank you,

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Could Stand-alone Andromeda use mzXML or mgf??!!

The APL to MGF converter has stopped working. Do you know any current working converter? Thank you,

7/15/20

Sílvia Batista, … Michael Regan8

7/8/20

Perseus annotation help

Hi everyone, I'm very new to Perseus and require the addition of annotations to move to the next

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Perseus annotation help

Hi everyone, I'm very new to Perseus and require the addition of annotations to move to the next

7/8/20

abak...@gmail.com, … Katelyn Ludwig11

6/18/20

MaxQuant error at label free normalization step

Hi Cesar, No, I never got it fixed unfortunately. On Sunday, June 14, 2020 at 3:33:21 PM UTC-4, César

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MaxQuant error at label free normalization step

Hi Cesar, No, I never got it fixed unfortunately. On Sunday, June 14, 2020 at 3:33:21 PM UTC-4, César

6/18/20

Proteomics_lerner, … Nimai Charan Mahanandia5

6/8/20

run the MaxQuant for TMT data

Respected Sir, Can you solve this problem TMT data analysis in MaxQuant? I am also facing same

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run the MaxQuant for TMT data

Respected Sir, Can you solve this problem TMT data analysis in MaxQuant? I am also facing same

6/8/20

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