Mycobacterium tuberculosis single nucleotide polymorphisms: endemic and epidemic isolates from RFLP types 0.0142 and 0.0728 in Alberta, Canada
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https://figshare.com/articles/dataset/Mycobacterium_tuberculosis_single_nucleotide_polymorphisms_endemic_and_epidemic_isolates_from_RFLP_types_0_0142_and_0_078_in_Alberta_Canada/5101039
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Whole genome sequencing was performed on the Illumina HiSeq 2500. Paired-end reads were trimmed to remove
adaptors and low-quality bases using Trim Galore v 0.2.6. We
mapped reads to H37Rv (NC_000962.3) using BWA-MEM v 0.7.7.
We used GATK v 2.8.1 for indel realignment and variant calling. We created SNP alignments from variant
calls produced by reference guided assembly. SNPs falling in
repetitive regions of the MTB genome (i.e. PE/PPE genes) and SNPs that
corresponded to a gap or ambiguous call in other isolates were removed.
创建时间：
2017-06-30
