bam or VCF files from GSE75010
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ahonya • 0
@a18fb726
Last seen 11 weeks ago
United Kingdom

Hi all

I'm planning to run a variant calling analysis using Microarray data GSE75010 that contains GSE75010_RAW.tar and GSE75010_complete_dataset.csv.gz. I used to download the .fastq files using SRA Run numbers through Ubuntu/Linux to get .bam and VCF files. However, this is not the case as there are no SRA numbers. Someone can help me?

Regards,

Bony

splots CopyNumberVariationData • 279 views
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Cross-posted and same answer https://www.biostars.org/p/9581347/

Anyway, this question does not belong as unrelated to Bioconductor.

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@james-w-macdonald-5106
Last seen 6 hours ago
United States

You must be confused. Those are expression arrays, not genotyping, so you cannot do a 'variant calling analysis', whatever you mean by that. Also they are ARRAYS, so there are no FASTQ or BAM files.

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