vanmooylipidomics/LOBSTAHS

Issues

• Transfer formal Bioconductor ownership/maintainer responsibilities to @hholm

  #33 opened 3 years ago by jamesrco
  1

• excludeoddFAlength, IP_MAG class

  #22 opened 3 years ago by j-e-hunter
  9

• LOBSTAHS migration w/pending change of object classes in XCMS3

  #31 opened 3 years ago by jamesrco
  4

• Problem with 'num.treatments' in XCMS3 generated

  #34 opened 3 years ago by hholm
  0

• Fix multiple issues with recent commits

  #32 opened 3 years ago by jamesrco
  1

• Bring LOBSTAHS repo into alignment with Bioc Git server

  #29 opened 7 years ago by jamesrco
  2

• Addition of Lyso-DAGs, DAG-OH and MAG-OH lipids to database.

  #19 opened 7 years ago by j-e-hunter
  5

• "Auto-detect" LOBdbase object in doLOBscreen() call when it is embedded within a list

  #28 opened 7 years ago by jamesrco
  1

• Error in doLOBscreen

  #2 opened 8 years ago by ricoderks
  0

• Error screening based on retention time

  #3 opened 8 years ago by ricoderks
  1

• Error object 'num_compounds.this_species' not found when generating custom database

  #6 opened 8 years ago by jamesrco
  3

• Error when attempting to export a LOBSet using getLOBpeaklist()

  #7 opened 8 years ago by jamesrco
  1

• Error when calling generateLOBdbase(): "Error in FUN(X[[i]], ...): only defined on a data frame with all numeric variables"

  #26 opened 7 years ago by jamesrco
  2

• Error: "Input 'database' is not a 'LOBdbase' object..."

  #27 opened 7 years ago by jamesrco
  1

• Create some basic unit tests

  #25 opened 7 years ago by jamesrco
  0

• new lipid class in db

  #1 opened 8 years ago by ricoderks
  5

• Creating a custom database

  #17 opened 7 years ago by MarcNIOZ
  18

• Add guide to confidence code interpretation to vignette or Wiki

  #24 opened 7 years ago by jamesrco
  0

• Parallelization of doLOBscreen call to core screenPSpectrum function

  #23 opened 7 years ago by jamesrco
  0

• Add new argument to doLOBscreen function which will allow users to retain rejected/unidentified features

  #12 opened 7 years ago by joefutrelle
  2

• Accidental install from old bioclite repo.

  #21 opened 7 years ago by j-e-hunter
  4

• Ignore "empty" lines of csv data when reading user-supplied input tables

  #18 opened 7 years ago by jamesrco
  0

• more readable case-insensitive regexes

  #16 opened 8 years ago by joefutrelle
  0

• ms2 screening

  #10 opened 8 years ago by joefutrelle
  1

• Implement ability to run LOBSTAHS on ms data objects other than a CAMERA xsannotate object (with embedded xcmsSet)

  #13 opened 8 years ago by joefutrelle
  0

• port remaining for loops to R apply family of functions

  #15 opened 8 years ago by joefutrelle
  0

• Implement new argument to allow user to specify how large the retention time window tolerance should be

  #14 opened 8 years ago by joefutrelle
  0

• Automated merging of LOBSTAHS ID’s in + and - ionization mode for added level of confidence

  #11 opened 8 years ago by joefutrelle
  0

• allow caller to specify pathname of CSV file in getLOBpeaklist

  #9 opened 8 years ago by joefutrelle
  0