User: milton.andy

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milton.andy10
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Posts by milton.andy

<prev • 9 results • page 1 of 1 • next >
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changing snp id in PLINK binary files
... Hi, I have GWAS data as PLINK binary files that, unfortunately, have some of the SNPs entered with custom IDs. My question is - is it enough to change custom IDs to std format (rs ID) in the .bim file for PLINK software to work properly? Thank you for your help _Andy ...
snp written 8 weeks ago by milton.andy10
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Comment: C: calculating distances between DNA markers
... An example of the input can be found here: https://drive.google.com/file/d/17DR6ZUtXP0jpGxf35E6PqAEERpNz7wpi/view?usp=sharing The desired output should be as in this textfile: https://drive.google.com/file/d/1R_6duEybnIKn_3P9AI4ixPqlrzYcdI4l/view?usp=sharing Thanks jrj.healey ...
written 5 months ago by milton.andy10
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Comment: C: calculating distances between DNA markers
... Hi finswimmer, Thank you very much for your replay. A small example of the input can be found here: https://drive.google.com/file/d/17DR6ZUtXP0jpGxf35E6PqAEERpNz7wpi/view?usp=sharing The desired output should be as in this textfile: https://drive.google.com/file/d/1R_6duEybnIKn_3P9AI4ixPqlrzYcdI4 ...
written 5 months ago by milton.andy10
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calculating distances between DNA markers
... I am seeking help with what possibly is a trivial problem but so far I have not been able to locate suitable resource on the web so any pointers would be very appreciated. I have two uneven but sorted numerical arrays representing chromosomal positions of two non-overlaping sets of markers (SNPs). T ...
snp bash written 5 months ago by milton.andy10 • updated 5 months ago by finswimmer11k
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Answer: A: Suspending PLINK epistasis analysis
... Apologies for this, just CL ctrl-z works fine. Andy ...
written 11 months ago by milton.andy10
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Suspending PLINK epistasis analysis
... Hi, I am running some PLINK epistasis analyses on smallish datasets but even with 5k markers it is very slow. Is there a way to suspend execution of a process without losing what has been already done? Thanks for help and hints in advance. Andy ...
gwas plink epistasis written 11 months ago by milton.andy10
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Comment: C: Exonic SNPs extraction
... Thanks everyone for the answers. I don't think I have all the information required to generated gff (or GTF) file (https://genome.ucsc.edu/FAQ/FAQformat.html#format4) so I am not sure how to go about it. The SNP lists I've been dealing with have #rs (some with custom designations), chr, chr pos and ...
written 12 months ago by milton.andy10
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Exonic SNPs extraction
... Hi, I have a list of SNPs from a custom made microarray based on hg19/gb37. I need to extract all SNPs that are located in exons throughout whole genome. Is there a simple way to do this? Thanks in advance for your help ...
snp written 12 months ago by milton.andy10 • updated 12 months ago by Antonio R. Franco4.1k
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DNA methylation profiling
... Hi, I'm interested in using methylation analysis (possibly standard human methylome 450K Illumina array) to identify specific tissues. Does anyone know of such application and , if so, relevant publications describing methodology? Many thanks in advance. Andy ...
tissue profiling dna methylation 450k chip written 2.2 years ago by milton.andy10

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