User: hakimelakhrass

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Posts by hakimelakhrass

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Pulling TSV automatically from STRINGDB
... Hello So I am trying to automatically get the TSV file with all the interactions of a specific protein from STRINGDB. SInce i have a whole list of proteins I would like to this automatically. So every ID I enter I would like to export the entire TSV interaction file. I cannot seem to find a functio ...
stringdb written 3.3 years ago by hakimelakhrass80 • updated 5 months ago by gcasabo20
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Comment: C: Merging two datasets related to protiens and calculating the molec weight
... Thanks for the response! I know I know. I have been trying to break it down but the problem is I need to know if the geneID is matching AND if it is in the location at the same time. That is why I feel like I need to do it all at once. Originally like I have above, I was going to code it but that d ...
written 3.4 years ago by hakimelakhrass80
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Merging two datasets related to protiens and calculating the molec weight
... Hello! I have been trying to solve this problem for the better part of three days now. Here is a way to create sample data and then I will explain the problem: set.seed(1) id <- c(231466,231466,231466,158635979,158635979,158635979) type <- c('Phosphoserine', 'Phosphoserine', ...
R protein data written 3.4 years ago by hakimelakhrass80
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Comment: C: PCAs, how to interpret the scale of the axis
... I did notice the two different datasets parts. Sorry about that. Indeed the scale irrelevant ...
written 3.4 years ago by hakimelakhrass80
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Answer: A: PCAs, how to interpret the scale of the axis
... I always center and scale my data before doing PCA. That is the way I was taught. Maybe you can redo it and see what happens. Because if it is due to scale then the variation does not really exist. ...
written 3.4 years ago by hakimelakhrass80
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Comment: C: Sequence aligment within R data frame
... Ah it is provided in the imgur link. http://imgur.com/a/lRSrz ...
written 3.4 years ago by hakimelakhrass80
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Comment: C: Sequence aligment within R data frame
... Good catch..I did forget that ...
written 3.4 years ago by hakimelakhrass80
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Sequence aligment within R data frame
... So I am trying to loop over a data.frame in R where I have proteins and all of the protein subregions. The identifying factor is the geneID. The first occurrence of the geneID is always the whole protein. The following occurrences are the subregions. I am trying to align the subregions with the whol ...
R proteins written 3.4 years ago by hakimelakhrass80
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Pulling Protien Genbank files and All of it's isoforms from NCBI
... I have an R script that can take a list of proteins and returns you all of the genebank files. I am having trouble expanding that script to also include the isoforms of a protein. The only solution I can think of is pretty dirty. As of now my script returns exactly one genebank file for every protei ...
ncbi R genbank written 3.5 years ago by hakimelakhrass80
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Comment: C: How to append a data.frame in R with new data
... Wow...how about that. For some reason I really thought it couldn't! Thanks I will try just feeding it a list then. Thanks. ...
written 3.6 years ago by hakimelakhrass80

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Popular Question 3.5 years ago, created a question with more than 1,000 views. For Subsetting in R based on row name?

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