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Update error models #26

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10 tasks done
HadrienG opened this issue Oct 24, 2017 · 1 comment
Closed
10 tasks done

Update error models #26

HadrienG opened this issue Oct 24, 2017 · 1 comment
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@HadrienG
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enhancement
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1.0.0

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HadrienG commented Oct 24, 2017 •
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The two error models currently built-in are based on fairly old genomics data. It'd be nice to base them on recent-ish metagenomes, or at least recent genomic datasets sequencing with most popular read-lengths + lib prep

  • Identify 1 MiSeq, 1 HiSeq and 1 NovaSeq dataset to use

MiSeq

  • Assembly with megahit
  • mapping the reads back to the assembly with bowtie2
  • build models from the bam file

HiSeq

  • Assembly with megahit used public illumina data from human
  • mapping the reads back to the assembly with bowtie2
  • build models from the bam file

NovaSeq

  • Assembly with megahit used public illumina data from human
  • mapping the reads back to the assembly with bowtie2
  • build models from the bam file

Roadmap reference: Provide at least 1 good HiSeq and 1 good MiSeq model
@HadrienG HadrienG self-assigned this Oct 24, 2017
@HadrienG HadrienG mentioned this issue Oct 24, 2017
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@HadrienG HadrienG added this to the 1.0.0 milestone Oct 27, 2017
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closed with 38c73a1

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