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I provide software and service to help people to understand high dimensional data by means of visualization.
Posts by jamesxli2007
... As the title says, I would like to download all known CDS sequences of human genome with transcript id and exon compositions to my desktop computer for analysis. I tried to get it from BioMart on ensemble.org, it worked for small queries, but my query to load all data always times out. thanks Jam ...
... Hi everyone, in order to get the SNPs of chromosome 1 ( homo sapiens,) I went to BioMart page on the site ensembl.org. I selected "Ensembl Variation 83"/"Homo Sapiens Short Variants(SNPs and indels excluding flanked variants)" as dataset and set the filter to chromosome 1. The data file I downloa ...
... It looks like your R program is trying to build a 570K x 570K covariance matrix, which is huge. A better way to do PCA for such wide matrix is to pass the transposed the 570000x92 matrix to the PCA algorithm, which will calculate the eigenvectors based on the 92x92 covariance matrix. You can then mu ...
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