User: Bioinformatics_NewComer

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Posts by Bioinformatics_NewComer

<prev • 115 results • page 1 of 12 • next >
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Comment: C: Plot local ancestry on chromosome
... Thank you. I'll look into it. ...
written 8 days ago by Bioinformatics_NewComer320
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Comment: C: Genotype input in matrix eqtl with dosage dataset
... I thought there was flag button on site. This seems spam. ...
written 21 days ago by Bioinformatics_NewComer320
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Microarray: aroma.affymetrix version for HuGene and HuExon
... Hi All, I'm using aroma.affymetrix R package to get exon level summaries. HuEx-1_0-st-**v2** CDF file I got exon level estimates from instructions at: http://www.aroma-project.org/chipTypes/HuGene-1_0-st-v1/ I cannot get transcript level information (FIRMA scores) working hence I w ...
expression microarray aroma written 5 weeks ago by Bioinformatics_NewComer320 • updated 5 weeks ago by Kevin Blighe33k
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Plot local ancestry on chromosome
... I've per chromosome, per SNP composition from three ancestries using ELIA for each individual. I'd like to plot these information. Is there any R package that can help? Output as: `0.107 0.995 0.898 ` `0.992 0.001 1.007 ` `0.597 1.402 0.001 ` `1.998 0.001 0.001 ` `0.933 0.011 1. ...
ancestry plot written 8 weeks ago by Bioinformatics_NewComer320 • updated 12 days ago by bernatgel1.4k
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Comment: A: Are these two proteins homolog?
... I think this is cross-posted https://biology.stackexchange.com/questions/77050/are-these-two-proteins-homolog ...
written 3 months ago by Bioinformatics_NewComer320
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Comment: C: Gene expression using R
... Try loading/using ff read library in R with such huge data. It gives output in a little bit different data structure but tinkering around with small data (N=10) may help for guidance. ...
written 4 months ago by Bioinformatics_NewComer320
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Comment: C: Finding SNPs between two inbred genetic lines
... If you've VCF files may be giving a try to VCF-compare could be good. It tells your mismatches/matches per person. You can filter SNPs based on overlap in reference and other sets eventually. You can use vcftools to filter snps from vcf files. ...
written 4 months ago by Bioinformatics_NewComer320
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Comment: C: Split plink files by a number of SNPs
... You can extract SNPs of your interest using --extract flag. Loop for every 1,000 SNPs. ...
written 4 months ago by Bioinformatics_NewComer320
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Comment: C: Plink beginner help please - excluding Chr 0
... plink --b/file data_to_qc --chr 1-22 --make-bed --out pre_qc_data This will give Chr 1-22 in output. ...
written 5 months ago by Bioinformatics_NewComer320
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Comment: C: Microbial diversity analysis using whole-genome metagenomic data
... Please create a new thread. Thanks. ...
written 5 months ago by Bioinformatics_NewComer320

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