User: RB

gravatar for RB
RB20
Reputation:
20
Status:
New User
Location:
Germany
Last seen:
5 years, 3 months ago
Joined:
7 years, 10 months ago
Email:
t****@biostars.org

Posts by RB

<prev • 9 results • page 1 of 1 • next >
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Comment: C: Software for Mcdonald-Kreitman test
... DnaSP is the tool for running various test including MKT http://www.ub.edu/dnasp/DnaSP_OS.html. Hope this will help someone. ...
written 5.3 years ago by RB20
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Purifying selection M7 and M8 models
... Dear All, Can anyone suggest me how to utilize m7 and m8 models results to estimated purifying selection or relaxed constraints acting on your gene family. Any other tutorial or methodology will also be helpful. Thanks, Reb ...
purifyingselection codemlmodels written 5.4 years ago by RB20 • updated 5.3 years ago by Martombo2.5k
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rooted tree as an input to codeml
... Hi All, I generate my trees for codeml analysis using RAXML and used lineage-specific and site-specific models. I never changed my trees to unrooted trees and used the default output of RAXML with clock=0. Can anyone suggest if my analysis will be valid or I should redo it using unrooted trees? Fr ...
rootedtrees codeml written 5.4 years ago by RB20
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Understanding codeml output for orthology cluster and genefamily cluster
... Dear All,   I have conducted codeml analysis on orthology clusters of few different gene sets from a species. There is one recent study conducted on the same species. We have slight differences in methodology but I found my results very different than theirs. I am bit perplexed and tired of recheck ...
codeml written 5.4 years ago by RB20 • updated 5.3 years ago by shuomou0
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Comment: C: Software for Mcdonald-Kreitman test
... My data is in fasta format. I have within species data for around 1000 individuals and I can't submit all that on MKT online server. That's why I am looking for a standalone tool.   ...
written 5.4 years ago by RB20
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Comment: C: Software for Mcdonald-Kreitman test
... hi Pgibas, Does any standalone tool exists for this? ...
written 5.4 years ago by RB20
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Software for Mcdonald-Kreitman test
... Dear All, I am new to population-genetics area. Can anyone please let me know if the pop-gen community performs tests like Mcdonald-Kreitman, HKA by writing there own scripts or any software exists for these? Thanks, RT ...
population-genetics mcdonald-kreitman written 5.4 years ago by RB20 • updated 22 months ago by mt1022210
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Comment: C: Visualizing K Mean Clustering Results
... it is expression data...say it as 15 samples and 10,000 genes. I clustered the data first using hierarchical clustering and got 300 clusters. Then I did the kmean clustering, giving no of clusters 300. When I use the plot function, it does not plot anything. I am new to R, Please help. ...
written 7.8 years ago by RB20
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Visualizing K Mean Clustering Results
... Hi All I clustered my data using Kmean clustering in R and clustered into 300 clusters. Can any one please help me how to plot these results in a scatter plot using R. Thanks very much. RT ...
R visualization clustering written 7.8 years ago by RB20 • updated 2.9 years ago by Ron970

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Popular Question 7.8 years ago, created a question with more than 1,000 views. For Visualizing K Mean Clustering Results

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