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@drewjbeh drewjbeh released this 18 Dec 09:54
· 614 commits to master since this release
v0.2
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Learn about vigilant mode.

Major update to modification analysis

mim-tRNAseq now performs modification analysis per unique tRNA sequence instead of per cluster. This is achieved by analysing mismatches between cluster members and using unique mismatches to characterise unique tRNA sequences that can be split from the cluster member. This was previously done to split overall read counts, but now this is performed before modification analysis so that each read can be assigned to a unique tRNA sequence group. Each read is then assessed for stops and modifications after assignment to its new group.

Other new features

  • New predicted modifications and inosines output to mods/predictedMods.csv. This contains predicted sites for each sample run, with canonical position numbering and proportions of each nucleotide misincorporated for easier annotation of new detected mods.

Minor bug-fixes

  • S. pombe reference tRNA names altered for consistent naming in output plots
  • Mitochondrial coverage plots now have legends with two columns so that all items are visible in output PDF
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