structure-software

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Welcome to the discussion group for the program Structure. Structure is used for inference of population structure in genetics.

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Jun 26

treemix analyses not outputting vertices and edges files and -nans

Hi all, I have been trying to run a TreeMix analyses using a set of 109 individuals (160 SNPs, only

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treemix analyses not outputting vertices and edges files and -nans

Hi all, I have been trying to run a TreeMix analyses using a set of 109 individuals (160 SNPs, only

Jun 26

Whitney Vickers, Erkaya Mustafa2

Jun 26

Structure Harvester site is down

Try the Structure selector! https://lmme.ac.cn/StructureSelector/ On Friday, June 21, 2024 at 2:43:22

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Structure Harvester site is down

Try the Structure selector! https://lmme.ac.cn/StructureSelector/ On Friday, June 21, 2024 at 2:43:22

Jun 26

Jun 16

Problem in data loading

While uploading a file, it says, "107 lines with 37882 columns. Line number 1 with 37880 columns

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Problem in data loading

While uploading a file, it says, "107 lines with 37882 columns. Line number 1 with 37880 columns

Jun 16

Jerry William Kattawar, III, … NURUL AFIA ABD. MAJID5

May 21

Estimated K is weird.

I think I have a similar issue too. Have you found the solution? When I ran to identify the optimal K

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Estimated K is weird.

I think I have a similar issue too. Have you found the solution? When I ran to identify the optimal K

May 21

Joyce Estrada Gamboa

May 19

How to select the correct Repetition for a specific K

Hello everyone, I am running a STRUCTURE analysis in a Linux terminal. I got the results, and I

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How to select the correct Repetition for a specific K

Hello everyone, I am running a STRUCTURE analysis in a Linux terminal. I got the results, and I

May 19

May 15

Issues with input files

Hello, I am currently having issues with two structure input files. The first line isn't reading

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Issues with input files

Hello, I am currently having issues with two structure input files. The first line isn't reading

May 15

Filip Varga, Vikram Chhatre2

May 15

ParallelStructure in R - error upon completion

In general, it's a bad idea to include spaces in either file or folder names. I would fix that

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ParallelStructure in R - error upon completion

In general, it's a bad idea to include spaces in either file or folder names. I would fix that

May 15

Danielle Velasco de Andrade, Sean C2

May 13

Delta K analysis

Check each output file for LnP(K) across all replicates of K. For a given value of K, do all LnP(K)

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Delta K analysis

Check each output file for LnP(K) across all replicates of K. For a given value of K, do all LnP(K)

May 13

Alexis Omar Tarula Marin, … Basu Umer3

May 8

FastStructure - Strange results

Dera brother Marlin I am a beginner of pop. gentics. I think there is no mixing within individuals,

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FastStructure - Strange results

Dera brother Marlin I am a beginner of pop. gentics. I think there is no mixing within individuals,

May 8

Marc Elosua Bayes

Apr 28

Sample names shortened

Hello. First of all - thank you so much for developing and maintaining such an incredible tool! I am

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Sample names shortened

Hello. First of all - thank you so much for developing and maintaining such an incredible tool! I am

Apr 28

M C, Vikram Chhatre2

Apr 11

CLUMPP not completing for K>4

Mike - It looks like your REPEATS are not set correctly in the permutation file. Also, algorithms and

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CLUMPP not completing for K>4

Mike - It looks like your REPEATS are not set correctly in the permutation file. Also, algorithms and

Apr 11

renee....@gmail.com3

Apr 9

Treemix line zero error

I'll also note that this looks to be an error regularly associated with using the treemix files

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Treemix line zero error

I'll also note that this looks to be an error regularly associated with using the treemix files

Apr 9

Мария Мария

Apr 6

The graphic on binary matrix is not informative

Good morning, is binary matrix works well in the Structure? We tried to build a graph using a matrix

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The graphic on binary matrix is not informative

Good morning, is binary matrix works well in the Structure? We tried to build a graph using a matrix

Apr 6

Zoe Meziere, Haley Arnold2

Mar 29

Treemix - wrong values of m and i in OptM

Hi, I am experiencing the same issue. Did you ever figure out what was going on? Is this normal optM

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Treemix - wrong values of m and i in OptM

Hi, I am experiencing the same issue. Did you ever figure out what was going on? Is this normal optM

Mar 29

Mohamad Ali El Chami

Mar 13

Empty "Results " file and Warning error in STRUCTURE

Hello, I tried to run STRUCTURE software on my computer windows 10 i have problem with the output

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Empty "Results " file and Warning error in STRUCTURE

Hello, I tried to run STRUCTURE software on my computer windows 10 i have problem with the output

Mar 13

Fabrizio Olivieri, Vikram Chhatre2

Mar 13

PROBLEM: structureharverster.py

How did you download the Harvester script from github? If you did not use either the clone/zip route,

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PROBLEM: structureharverster.py

How did you download the Harvester script from github? If you did not use either the clone/zip route,

Mar 13

Mar 8

Troubleshooting

Hello! I've recently added data for 35 individuals to a preexisting data set, but structure seems

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Troubleshooting

Hello! I've recently added data for 35 individuals to a preexisting data set, but structure seems

Mar 8

Ida Naughton, Vikram Chhatre4

Feb 22

command line error for structure/strauto

Perhaps I don't remember and that binary was always 32bit. In any case, your best bet is to get

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command line error for structure/strauto

Perhaps I don't remember and that binary was always 32bit. In any case, your best bet is to get

Feb 22

Samuel Lam, … Dent Earl3

Feb 20

Structure harvester - AttributeError

Thanks for the re-direct Vikram! Hey Sam, looking at the error message you've posted I wonder if

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Structure harvester - AttributeError

Thanks for the re-direct Vikram! Hey Sam, looking at the error message you've posted I wonder if

Feb 20

Elizabeth Collins, … Vikram Chhatre5

Feb 16

How to visualize structure figures as a Mac M1 chip user

Note that the distruct I linked (https://distruct2.popgen.org) is not a new version of the Distruct

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How to visualize structure figures as a Mac M1 chip user

Note that the distruct I linked (https://distruct2.popgen.org) is not a new version of the Distruct

Feb 16

Travis Rainey, Vikram Chhatre8

Feb 14

Structure Harvester with Python

You are already inside the python2 folder. So you will call the harvester script directly, not nested

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Structure Harvester with Python

You are already inside the python2 folder. So you will call the harvester script directly, not nested

Feb 14

Vaibhav Mahilang, … Francisco Pina Martins14

Feb 5

Structure and Structure Threader [Estimated Ln Prob of Data]

Dear Vaibhav, I realized the issue, I noticed that in my system, the structure runs are still running

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Structure and Structure Threader [Estimated Ln Prob of Data]

Dear Vaibhav, I realized the issue, I noticed that in my system, the structure runs are still running

Feb 5

RN Sarma, Vikram Chhatre2

Feb 3

Error in structure harvester.py

In order to run any python software, you have to first call python. $python structureHarvester.py

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Error in structure harvester.py

In order to run any python software, you have to first call python. $python structureHarvester.py

Feb 3

Jan 29

Structure Harvester

Good morning, Lately, there have been several messages about lack of access to Structure Harvester

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Structure Harvester

Good morning, Lately, there have been several messages about lack of access to Structure Harvester

Jan 29

Omar Zayas, Francisco Pina Martins4

Jan 28

Structure_Threader not reading the mainparams file

Hi Omar, Glad to hear it's sorted. I have, nevertheless clarified the documentation on the --

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Structure_Threader not reading the mainparams file

Hi Omar, Glad to hear it's sorted. I have, nevertheless clarified the documentation on the --

Jan 28

Vaibhav Mahilang, Vikram Chhatre3

Jan 26

STRUCTURE : STARTATPOPINFO

Yes, that is true. I have a few individuals whose popdata and popflag are set to 0. I am attaching a

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STRUCTURE : STARTATPOPINFO

Yes, that is true. I have a few individuals whose popdata and popflag are set to 0. I am attaching a

Jan 26

Jan 25

Structure Harvester website

The error message is This site can't be reached Check if there is a typo in taylor0.biology.ucla.

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Structure Harvester website

The error message is This site can't be reached Check if there is a typo in taylor0.biology.ucla.

Jan 25

Navin Shrestha, … Francisco Pina Martins9

Jan 1

error: C compiler cannot create executables while installing fastStrucutre

Hi again Navin, As far as I can tell, STRUCTURE also requires the 1 2 3 4 -9 format. I'm not sure

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error: C compiler cannot create executables while installing fastStrucutre

Hi again Navin, As far as I can tell, STRUCTURE also requires the 1 2 3 4 -9 format. I'm not sure

Jan 1

Vijay Rajamanickam

12/30/23

not able to convert VCF format into Structure format file

Dear Folks, Could you please have anyone tell me how to convert a VCF file into STRUCTURE format file

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not able to convert VCF format into Structure format file

Dear Folks, Could you please have anyone tell me how to convert a VCF file into STRUCTURE format file

12/30/23

Julius Pyton Sserumaga, Imiru Chimdessa2

12/29/23

Re: [structure-group] Coding issue? running structure in R

Hi Dear, I got difficulty in that when I start to run structure software, using SNP data, it says bad

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Re: [structure-group] Coding issue? running structure in R

Hi Dear, I got difficulty in that when I start to run structure software, using SNP data, it says bad

12/29/23

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