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BioGenies / imputomics

http://biogenies.info/imputomics/
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Imputation methods #1

Open michbur opened 1 year ago

michbur commented 1 year ago
  1. min
  2. mean
  3. halfmin
  4. median
  5. zero
  6. random
  7. bpca
  8. ppca
  9. svd
  10. nipals
  11. nlpca
  12. missmda_reg
  13. missmda_em
  14. amelia
  15. missforest
  16. mi
  17. areg
  18. qrilc
  19. mle
  20. twlsa
  21. softimpute
  22. irmi
  23. pmm
  24. midastouch
  25. cart
  26. rf
  27. norm
  28. norm.nob
  29. norm.boot
  30. norm.predict
  31. lasso.norm
  32. lasso.select.norm
  33. PEMM https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4061266/
  34. kNN-TN https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-017-1547-6
  35. GSimp https://github.com/WandeRum/GSimp
michbur commented 1 year ago

Won't be added:

KrystynaGrzesiak commented 1 year ago

sources and references: https://docs.google.com/spreadsheets/d/1TSyhQYtzjgsQRPnBu9ss73wkdkW9Ht7ZAsoLp4YieaA/edit?usp=sharing

jarochi commented 1 year ago

spreadsheet: https://docs.google.com/spreadsheets/d/1NhkV2ZlhDBAkQOpd3CCJbDoUQWf4WnlC9aiOLPcr4KU/edit?pli=1#gid=0 pubmed queries: imputation missing metabolomics; metabolomics missing values; metabolomics missing; metabolomics imputation

michbur commented 1 year ago

Identify packages to following methods

method doi package/code No code
nsKNN 10.1038/s41598-017-19120-0 NA FALSE
random forest 10.1093/bioinformatics/btz488 NA TRUE
KNN-TN 10.1093/bioinformatics/btz488 NA TRUE
compound minimium 10.1093/bioinformatics/btz488 NA TRUE
GSimp 10.1093/bioinformatics/btz488 NA TRUE
KNN-TN 10.1186/s12859-019-3250-2 NA TRUE
GSimp 10.1186/s12859-019-3250-2 NA TRUE