User: pedroamandrade

Reputation:
40
Status:
New User
Location:
Portugal
Last seen:
1 month, 2 weeks ago
Joined:
2 years, 2 months ago
Email:
p*************@gmail.com

Posts by pedroamandrade

<prev • 10 results • page 1 of 1 • next >
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Comment: C: diFST with awk - subtract and divide column value by their average and stdev
... Hi Kevin, Thanks for the script! That does exactly what I needed! ...
written 6 weeks ago by pedroamandrade40
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Comment: C: diFST with awk - subtract and divide column value by their average and stdev
... Hi Pierre, the reason I asked for awk is because I'm used to doing most simple calculations in this language. ...
written 7 weeks ago by pedroamandrade40
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Comment: C: diFST with awk - subtract and divide column value by their average and stdev
... Hi Kevin, My objective is to incorporate the mean and standard deviation of the column into the formula itself. For example, given a column $1, do: ($1-average$1)/(stdev$1) Basically, I want to convert each value of $1 into a zscore (for example, following this: [https://statistics.laerd.com/stat ...
written 7 weeks ago by pedroamandrade40
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diFST with awk - subtract and divide column value by their average and stdev
... Hi everyone, I am trying to create a simple script to sum z-scores of several pairwise FST comparisons (basically, replicate the diFST statistic from this paper: [http://www.pnas.org/content/107/3/1160.full][1]) I already found awk scripts to calculate average and standard deviation of a field, bu ...
z-score average awk unix standard deviation written 7 weeks ago by pedroamandrade40
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Input file MULTIPOOL - reference allele counts from mpileup/bam
... Hi everyone, I have been analysing a pool-seq dataset using the popoolation suite of tools, but I would like to give MULTIPOOL a try as well. However, I am having some difficulties in formatting the input file. According to the wiki ([https://github.com/matted/multipool/wiki][1]), it should be some ...
allele counts multipool written 4 months ago by pedroamandrade40 • updated 3 months ago by Biostar ♦♦ 20
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Answer: A: How to sequentially replace a string with numerical value?
... Thank you for all the quick responses. The solution by shenwei356 already worked, but I'll try the other ones and give feedback ...
written 11 months ago by pedroamandrade40
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Comment: C: How to sequentially replace a string with numerical value?
... This solution works perfectly, and it is extremely quick, thank you very much! ...
written 11 months ago by pedroamandrade40
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How to sequentially replace a string with numerical value?
... Hi everyone, I have a list of snps with string chromosome names that I want to replace with a sequential numerical value (preparing a qqman input file). For example, turn this: chrA chrA chrA chrB chrB chrC chrC chrC chrC ... chrZ chrZ into this ...
genome qqman written 11 months ago by pedroamandrade40 • updated 11 months ago by Malcolm.Cook790
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SNP data in phylip format
... Hi everyone, I have a SNP database that I want to convert to phylip format (later to use in Lamarc), but every example I have come across is from sequence data. When converting the data with PGDSpider there's an option to write the data as SNP-type, but afterwards the program converts it to sequenc ...
phylip snp written 21 months ago by pedroamandrade40 • updated 16 months ago by perezalquicira0
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Answer: A: How To Solve Gapfiller Error
... Hey, I know it has been a while since this has been posted, but today I ran into the same problem and found no solution on the internet until I discovered what was wrong with my fasta. In my case it was a simple space at the top of the file, with no header. Creating a header for the top line fixed ...
written 2.2 years ago by pedroamandrade40

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Popular Question 3 months ago, created a question with more than 1,000 views. For SNP data in phylip format

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