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From adriantks

Projects[edit]

  1. primer evaluation pipeline
  2. Taxonomic processing in rust
  3. python - pandas, plotly and numpy - use singularity for deployment
  4. learn multiqc for report generation
  5. explore mothur - https://mothur.org/
  6. virus reference panel builder
    • automatic downloading using NCBI tax ID
    • genome lengths
    • similarity matrices
    • CG makeup
    • annotation files
  7. sanger sequencing pipeline
  8. medaka - tensor flow support
  9. nanopore pipeline - mean length, median length
  10. bacteria identification program
    • gold standard testing
    • ensemble?
    • heuristic based
  11. salmonella characterisation for PT

Sequence Collection by Taxonomic ID[edit]

  1. Download relevant databases
    • taxonomy DB
    • download related sequences

Refseq++[edit]

  1. Autocuration of sequences in genbank but not in refseq


Virus sequence collection summarizer[edit]

Short variant genotyper[edit]

Chromatogram viewer[edit]

Commandline

Links[edit]

Vignettes