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1. dotfiles dotfiles Public

   My bash dotfiles

   Shell 2 2

2. mskcc/vcf2maf mskcc/vcf2maf Public

   Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms

   Perl 378 218

3. Test Illumina Dragen software on an ... Test Illumina Dragen software on an Azure NP10 VM

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   ### Purpose

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   Test an NP-series VM on Azure with Dragen's pay-as-you-go (PAYG) license

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   ### Prerequisites

4. Compare the speed of containerized b... Compare the speed of containerized bwa-mem using various base images

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   On a Linux VM or Workstation with `docker` installed, fetch the GRCh38 FASTA, its index, and a pair of FASTQs:

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   ```bash

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   wget -P /hot/ref https://storage.googleapis.com/genomics-public-data/references/GRCh38_Verily/GRCh38_Verily_v1.genome.fa{,.fai}

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   wget -P /hot/reads/test https://storage.googleapis.com/data.cyri.ac/test_L001_R{1,2}_001.fastq.gz

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   ```