User: stanley.ju

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stanley.ju0
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Posts by stanley.ju

<prev • 5 results • page 1 of 1 • next >
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KEGG API Validation
... When I run curl to call the KEGG API (e.g. curl http://rest.kegg.jp/link/pathway/{insert ID here}) on a loop of a bunch of identifiers, I often times get different results. When I run the script once, I may get the corresponding pathway ID for a certain gene that I don't get a pathway for the second ...
perl python kegg written 6 months ago by stanley.ju0
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Comment: C: Cluster plots from categorical clustering
... Not an expert, but isn’t this what tSNE does? ...
written 8 months ago by stanley.ju0
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Hypsibius dujardini locus ID conversion
... I'm relatively new to this and have just gotten raw reads from SRA samples in [PRJNA369152](https://www.ebi.ac.uk/ena/data/view/PRJNA369152) (just trying to reanalyze their data for the learning experience). I've only ever analyzed human and mouse datasets before. This is the tardigrade *Hypsibius ...
alignment salmon rna-seq written 8 months ago by stanley.ju0
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Comment: C: TCGA Filename Breakdown
... I see--so b110_113 is some sort of sample marker? This particular file name came from a download from [TCGA Data Portal --> Uterine Corpus Endometrial Carcinoma --> Copy Number Variation.][1] It was just the first file in the archive after I downloaded (straight from the web, since they're pr ...
written 14 months ago by stanley.ju0
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TCGA Filename Breakdown
... What do the different components of a TCGA data filename mean? For example, here's one file I was looking at: HORNS_p_TCGA_b110_113_SNP_N_GenomeWideSNP_6_C10_772388.grch38.seg.v2.txt Some parts are self-explanatory. This comes from a genome-wide SNP array, I assume the 6 is Affymetrix 6.0. But wha ...
genome tcga copy number variation written 14 months ago by stanley.ju0

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