User: r.tor

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r.tor40
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4 weeks ago
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3 years, 9 months ago
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Posts by r.tor

<prev • 26 results • page 1 of 3 • next >
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Comment: C: Merge coordinates by gene ID
... Yup! such a smart workaround:) ...
written 29 days ago by r.tor40
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Comment: C: Merge coordinates by gene ID
... The solution works well. Btw, I edited the data.output adding ENSG00000082 that was mistakenly deleted. Could you give me a little explanation how did you address this to the bedtools and what is the difference between columns for him? ...
written 29 days ago by r.tor40
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Comment: C: Merge coordinates by gene ID
... It doesn't seem that this can see the point. It considers two genes the same even if their coordinates can be placed within each other so then applies the same coordinates for both. As I pointed out, I look for a way that can treat the rows for each gene separately. ...
written 4 weeks ago by r.tor40
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Merge coordinates by gene ID
... I have a .bed file `data` that is obtained from concatenating of two .bed files. It's been done through [BEDOPS][1] --everything option so, all four columns (chr\start\end\gene_ID) are preserved nicely. For each gene ID, there are a few rows of coordinates that may or may not be overlapped. I am lo ...
bedtools bed bedops bash written 4 weeks ago by r.tor40
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Split up a matrix into chunks considering the values of a column in Bash
... I want to split up a matrix called 'matrix' into chunks based on the values in the first column, 'GENE', and save each chunk as a separate .gz file. So that, there would be subsets of the matrix, each of which will have the lines corresponding to the only 3 GENEs, just not the last one as shown in t ...
shell bash written 6 months ago by r.tor40
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(Closed) The best PCR based approach to genotype up to a hundred SNPs in human.
... Hello! I am looking for an accurate customizable technique to genotype up to a hundred SNPs, a range from 50 to 100. The SNPs are known but are located in different genes. The experiment assumed to be applied on human samples. Also, when I was checking out some related commercial kits, I saw the ...
snp genotyping written 15 months ago by r.tor40
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Where to get population diversity information of GTEx database?
... Hello, I am looking for population types of individuals (like FIN, TSI, GBR, ...) in GTEx database since I am trying to perform Principal Component Analysis using EIGENSTRAT. I actually failed in finding this data from GTEx portal and the annotation files, while certainly there must be somewhere! ...
pca gtex rna-seq written 19 months ago by r.tor40
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How to generate a short sequence that does not align to the hg38?
... I would like to find a short sequence (25 bp) that does not match anywhere within Human Reference Genome (hg38/hg19) through R scripts. I am not sure if there is a quick solution to do what I am looking for. So, I guess it would be solve, if I can create a list of random 25 bp fragments and then do ...
R alignment written 22 months ago by r.tor40
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Comment: C: Create snakefile based on R script
... just downloading the ordered regions from database! ...
written 22 months ago by r.tor40
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Comment: C: Create snakefile based on R script
... Hi, you mean is to put all R scripts in one rule? and what about the input section of the rule? ...
written 22 months ago by r.tor40

Latest awards to r.tor

Popular Question 6 months ago, created a question with more than 1,000 views. For What is the appropriate approach for CNV and loss of heterozygosity analysis?
Popular Question 10 months ago, created a question with more than 1,000 views. For What is the appropriate approach for CNV and loss of heterozygosity analysis?
Popular Question 15 months ago, created a question with more than 1,000 views. For What is the appropriate approach for CNV and loss of heterozygosity analysis?
Student 22 months ago, asked a question with at least 3 up-votes. For How to generate a short sequence that does not align to the RefSeq?
Scholar 3.8 years ago, created an answer that has been accepted. For A: What is the difference between using genome build hg18 and hg19 in Genome-wide S

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