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Posts by jgibbs
Answer: A: HISAT2 HLA genotyping errors
... Thanks to all who viewed this post. I solved the problem. Parts of samtools were missing. The problem was that after I made samtools, I put samtools into a directory in $PATH. But I didn't know there were other executables that should have gone there as well, hence they got built but weren't in my $ ...
... Hi, I'm trying to follow the tutorial for HLA typing and assembly in HISAT2 as described at http://ccb.jhu.edu/hisat-genotype/index.php/Type:HLA using my own RNAseq data. I do everything as described. I have samtools 1.7 installed. I am able to extract my HLA reads. But when I get to the last step, ...
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