User: Anurag

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Anurag20
Reputation:
20
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New User
Location:
Belgium
Last seen:
2 years, 11 months ago
Joined:
7 years, 7 months ago
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a*****************@gmail.com

Posts by Anurag

<prev • 7 results • page 1 of 1 • next >
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How to generate a smoothing plot for Fst along the genome from Lositan output?
... Hi All, I want to make a genome wide Fst plot using the Lositan output along with P-Values calculated by lositan. Any inputs will be appreciated. Thanks ...
fst snp lositan written 5.0 years ago by Anurag20 • updated 4.8 years ago by Zev.Kronenberg11k
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Comment: C: Calculating statistically significant outlier for Pairwise Fst obtained from VCF
... May you explain how we can do it in population scenario and what will be effect if we have 12 sample/population, lets say population A have 1.....12 and population B has 13....24. If we consider 0...11 as target and 12....23 as background, will I get the same output if I use If we consider 12....23  ...
written 5.1 years ago by Anurag20
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Comment: C: Calculating statistically significant outlier for Pairwise Fst obtained from VCF
... May you explain bit more how that can be done ...
written 5.1 years ago by Anurag20
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Comment: C: Calculating statistically significant outlier for Pairwise Fst obtained from VCF
... Cool, I will try and let you know. ...
written 5.1 years ago by Anurag20
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Answer: A: Calculating statistically significant outlier for Pairwise Fst obtained from VCF
... Dear Zev, Thanks for the Answer. I will try pFst. Lositan is not practical solution for me provided that I have more then 2 million variant positions.  Regarding, t,target -- argument: a zero based comma separated list of target individuals corrisponding to VCF columns INFO: required: b,back ...
written 5.1 years ago by Anurag20
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Calculating statistically significant outlier for Pairwise Fst obtained from VCFTools
... Hi, I calculated pairwise Fst using VCFTools: vcftools --vcf input_data.vcf --weir-fst-pop population_1.txt --weir-fst-pop population_2.txt --out pop1_vs_pop2 what method I should use for statistical significance to determine the outlier region or loci under putative selection or differentiation. ...
p value outliers selection differentiation written 5.1 years ago by Anurag20
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Getting Sequence Based On Chromosome No And Coordinates From Whole Genome Fasta File
... I am having chromosome no or fasta header and coordinates and thier orientation:for example Chr:start:end:strand chr8:1100023:1100050:+ (this list is quite long say about 15000 coordinates) and whole genome sequence in fasta format in other file, for example: >(fasta)chr8 sequence. Is ther ...
sequence coordinates tool written 7.6 years ago by Anurag20 • updated 12 months ago by Biostar ♦♦ 20

Latest awards to Anurag

Great Question 4.6 years ago, created a question with more than 5,000 views. For Getting Sequence Based On Chromosome No And Coordinates From Whole Genome Fasta File
Popular Question 4.6 years ago, created a question with more than 1,000 views. For How to generate a smoothing plot for Fst along the genome from Lositan output?
Popular Question 4.6 years ago, created a question with more than 1,000 views. For Calculating statistically significant outlier for Pairwise Fst obtained from VCFTools
Popular Question 7.6 years ago, created a question with more than 1,000 views. For Getting Sequence Based On Chromosome No And Coordinates From Whole Genome Fasta File

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