rprops/Phenoflow_package

Issues

• Installation issue: ERROR: dependency ‘flowFDA’ is not available for package ‘Phenoflow’

  #72 opened 3 years ago by vetrabindra01
  1

• functionality of FCS_pool and assigning a vector to stub

  #71 opened 3 years ago by carolina671
  2

• Make the package pass CRAN checks

  #36 opened 4 years ago by FMKerckhof
  2

• Reduce memory footprint of diversity_rf

  #38 opened 4 years ago by FMKerckhof
  1

• Justify text in markdown vignette

  #40 opened 4 years ago by FMKerckhof
  0

• add unit tests

  #34 opened 4 years ago by FMKerckhof
  0

• Columns in confusion matrix after RandomForest training seem to be swapped around

  #51 opened 4 years ago by prubbens
  3

• Allow group_label in RandomF_FCS()

  #49 opened 7 years ago by rprops
  5

• Implement feature importance evaluation

  #48 opened 6 years ago by rprops
  1

• Implement bootstrapping for evenness and So functions

  #3 opened 6 years ago by rprops
  0

• Include function for absolute quantification of OTUs

  #24 opened 6 years ago by rprops
  2

• Server side reproducibility of diversity_rf?

  #37 opened 6 years ago by FMKerckhof
  4

• RandomF_FCS error

  #64 opened 6 years ago by rprops
  5

• ggCyto: ggplot-style plotting for FCM data?

  #62 opened 7 years ago by prubbens
  1

• Implement FCS_pool in RandomF_FCS

  #54 opened 7 years ago by rprops
  2

• Where does TimeChannel come from in RandomF_precit, line 47?

  #57 opened 7 years ago by FMKerckhof
  1

• Shouldn't -W be included in the case of FACSVerse data in the build up to filter params for flowAI::autoQC?

  #58 opened 7 years ago by FMKerckhof
  3

• replace FCS_clean

  #53 opened 7 years ago by rprops
  0

• RandomF_FCS throws warnings when more than 1 dash occurs in the selected params (e.g. PerCP-Cy5.5-A)

  #55 opened 7 years ago by FMKerckhof
  0

• Bootstrap fp_contrasts

  #50 opened 7 years ago by rprops
  1

• Adjust vignette/tutorial with RandomForest example

  #45 opened 7 years ago by rprops
  0

• Provide options for dealing with minority classes in RandomForest function

  #47 opened 7 years ago by rprops
  0

• Random forest on time series fcm data

  #46 opened 7 years ago by rprops
  0

• In silico community function

  #25 opened 7 years ago by rprops
  2

• Add option to average across replicates

  #19 opened 7 years ago by rprops
  2

• Leinster & Cobbold implementation

  #27 opened 7 years ago by FMKerckhof
  8

• Add fcs to csv export of flowdata_transformed_all for downstream machine learning

  #30 opened 7 years ago by FMKerckhof
  2

• Implement Random forrest in R

  #31 opened 7 years ago by FMKerckhof
  5

• Rescaling for bandwidth calculations

  #44 opened 7 years ago by FMKerckhof
  3

• Error in the wiki: some alpha-diversity components are not calculated

  #41 opened 7 years ago by FMKerckhof
  2

• Add flowAI to imports?

  #32 opened 7 years ago by FMKerckhof
  1

• Clean install on win10, R 3.3.3 does not work ==> dependency settings?

  #28 opened 7 years ago by FMKerckhof
  9

• Growth curve analysis

  #17 opened 7 years ago by rprops
  1

• Incorporate inext functions Diversity_16S()

  #20 opened 7 years ago by rprops
  5

• add flowclean for QC in default pipeline (on wiki?)

  #29 opened 8 years ago by FMKerckhof
  6

• Parallelize Diversity_16S

  #26 opened 8 years ago by FMKerckhof
  9

• include error propagation for replicates

  #22 opened 8 years ago by rprops
  1

• Implement bootstrapping for beta diversity analysis

  #4 opened 8 years ago by rprops
  1

• Error on unix

  #15 opened 8 years ago by rprops
  1

• Evaluate effect sample size on Diversity()

  #18 opened 8 years ago by rprops
  1

• Add progress tag in Diversity()

  #21 opened 8 years ago by rprops
  0

• Issue with masking

  #16 opened 8 years ago by rprops
  2

• Adding non-CRAN packages

  #11 opened 8 years ago by rprops
  7

• maybe add travis ci build checks?

  #8 opened 8 years ago by FMKerckhof
  4

• Add citation

  #6 opened 8 years ago by rprops
  0

• tidy up code

  #7 opened 8 years ago by rprops
  1

• Test package.

  #5 opened 8 years ago by rprops
  0

• Supply datasets

  #9 opened 8 years ago by FMKerckhof
  2

• Create release branch and tags

  #10 opened 8 years ago by FMKerckhof
  0

• Rename repo

  #12 opened 8 years ago by FMKerckhof
  3