User: kajendiran56

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kajendiran56120
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Posts by kajendiran56

<prev • 21 results • page 1 of 3 • next >
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Any Zoology Databases Online? Information On Aspects Of Physical Characteristics And Behaviour
... Dear All, thank you for your attention. I was wondering if any of you knew of a specific zoology database resource that contains information about known species that is both comprehensive and accessible through a script? I have found certain localised information but have not been able t ...
database written 6.7 years ago by kajendiran56120 • updated 6.7 years ago by Mary11k
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Comment: C: Existing Phylogenetic Trees Generated For Eukaryotes Using Degenerate Sites From
... Sorry for not getting back until now. Thank you for your help, I appreciate your time. ...
written 7.0 years ago by kajendiran56120
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Comment: C: Existing Phylogenetic Trees Generated For Eukaryotes Using Degenerate Sites From
... Hi there, sorry for the delay. Thanks for pointing out the other posts. Regarding your question, what you say makes sense, using markers will cut down the processing time and in honesty I had not thought of this approach. One question however is would omitting the majority of the data produce ...
written 7.3 years ago by kajendiran56120
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Answer: A: Data Too Big To Be Stored In Memory: Common Options
... Some good answers here already. I once wrote a large data file but arranged data in a way that simply using grep within my script and running simultaneously on multiple threads achieved what I wanted. There are better solutions above, just thought I would add this as it has helped me before when I j ...
written 7.4 years ago by kajendiran56120
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Existing Phylogenetic Trees Generated For Eukaryotes Using Degenerate Sites From Alignments
... Dear All, I was wondering if there are any existing phylogenetic trees generated where entire eukaryotic genomes have been aligned. I am not an expert in evolution but I am aware that a tree with accurate branch lengths can be created using degenerate sites extracted from such an alignment ...
phylogenetics tree written 7.4 years ago by kajendiran56120 • updated 6.5 years ago by Biostar ♦♦ 20
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Protein Domain Swap Prediction
... Dear All, I was looking to see if there are any existing algorithms available that will predict from crystal structure data i.e. PDB file, the potential domain swap interactions that could exist between two proteins. I have looked but I have not been able to find anything. It may be the case ...
domain prediction written 7.4 years ago by kajendiran56120 • updated 4.0 years ago by Khader Shameer18k
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Cluto Clustering Algorithm - 3D Matrix Input File
... Dear All, I have just discovered Cluto as a way of clustering data which can be presented as a matrix. The standard format is as follows: a p1 p2 p3 b p1 p2 p3 c p1 p2 p3 where each row is an entry and each column corresponds to a parameter. I would like to compare and cluster prot ...
matrix format file written 7.4 years ago by kajendiran56120 • updated 4.6 years ago by Jean-Karim Heriche21k
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Biacore Data Processing And Analysis - Open Source Software?
... Dear all, thank you for taking the time to view my post. I was wondering if there are any open-source software that is capable of processing/analysing the data files output from Biacore in a similar manner to the official software? Thank you. ...
software data analysis written 7.4 years ago by kajendiran56120
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Comment: C: Clustering Large Dataset In Terms Of Sequence Similarity Using Eg... Blastclust
... Thank you for your extensive suggestions. I have managed to use CD-HIT but you are correct in that this is not ideal. I managed to use Clustal Omega to build an alignment and I will use FastTree as you have suggested. Although I am not using NGS data, I will look at the paper you have suggested as w ...
written 7.7 years ago by kajendiran56120
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Comment: C: Clustering Large Dataset In Terms Of Sequence Similarity Using Eg... Blastclust
... Thank you for your suggestion. I have used this effectively to build a crude tree, I am amazed at how quickly it does this. Thank you ...
written 7.7 years ago by kajendiran56120

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