lgatto/proloc issues and pull requests

#155 - Consider changing name of getMarkers()

Issue - State: open - Opened by Charl-Hutchings 23 days ago

#154 - Updates to plot2D

Pull Request - State: open - Opened by lmsimp 3 months ago

#153 - Update pRolocmarkers v2

Pull Request - State: closed - Opened by Charl-Hutchings 4 months ago

#152 - Modification of plot2D to allow filled characters

Issue - State: open - Opened by lmsimp 4 months ago - 4 comments

#151 - Updates to pRolocmarkers

Issue - State: closed - Opened by Charl-Hutchings 5 months ago - 14 comments

#150 - MSnSet <-> SummarizedExperiment

Issue - State: open - Opened by lgatto 5 months ago

#149 - Error in estep

Issue - State: closed - Opened by LojzaZ 8 months ago - 9 comments

#148 - highlightOnPlot doesn't work with t-SNE

Issue - State: closed - Opened by daveshire over 2 years ago - 1 comment

#147 - Update perTurbo-algorithm.R

Pull Request - State: closed - Opened by mgerault over 2 years ago - 1 comment

#146 - Update machinelearning-functions-PerTurbo.R

Pull Request - State: closed - Opened by mgerault over 2 years ago - 8 comments

#145 - impute(msn, method = "nbavg") potential bug

Issue - State: closed - Opened by Tlicknack almost 3 years ago - 5 comments

#144 - Unexpected output from fDataToUnknown

Issue - State: open - Opened by lmsimp about 3 years ago

#143 - New RNGseed in BiocParallel

Issue - State: open - Opened by lgatto over 3 years ago

#142 - fix biocparallel bug

Pull Request - State: closed - Opened by ococrook over 3 years ago - 1 comment

#141 - failing unit test - mcmc chains not equal

Issue - State: closed - Opened by lgatto over 3 years ago - 6 comments

#140 - phenoDisco : estep function not found (mclust)

Issue - State: closed - Opened by JustynaZitek almost 4 years ago - 2 comments

#139 - Write markers column into a .csv

Issue - State: closed - Opened by ortizmateujuan about 4 years ago - 2 comments

#138 - tagmPredict compatibility with Novelty TAGM results

Issue - State: open - Opened by ococrook over 4 years ago
Labels: bug

#137 - Not able to run phenoDisco in pRoloc

Issue - State: closed - Opened by azmal786 almost 5 years ago - 1 comment

#136 - Plotting bayes

Pull Request - State: closed - Opened by ococrook over 5 years ago

#135 - bayes plotting

Pull Request - State: closed - Opened by ococrook over 5 years ago - 1 comment
Labels: enhancement

#134 - PCA plot aspect

Issue - State: open - Opened by lgatto almost 6 years ago

#133 - Add F1000 TAGM workflow citations

Issue - State: open - Opened by lgatto almost 6 years ago

#132 - Biomart repository addition for Chinese Hamster

Issue - State: closed - Opened by OwenVennard about 6 years ago - 2 comments

#131 - Adds plotConsProfiles function

Pull Request - State: closed - Opened by TomSmithCGAT about 6 years ago - 2 comments

#130 - Function to plot average marker profile as heatmap

Issue - State: closed - Opened by TomSmithCGAT about 6 years ago - 3 comments

#129 - added optional call to grid in plot2D

Pull Request - State: closed - Opened by lmsimp about 6 years ago - 2 comments

#128 - Control grid presence in plot2D

Issue - State: closed - Opened by lgatto about 6 years ago - 3 comments

#127 - Novelty Tagm ToDo

Issue - State: open - Opened by ococrook about 6 years ago

#126 - merge upstream edits

Pull Request - State: closed - Opened by ococrook about 6 years ago

#125 - Cholesky fix

Pull Request - State: closed - Opened by ococrook about 6 years ago

#124 - Cholesky decomposition fix

Issue - State: closed - Opened by lgatto about 6 years ago - 4 comments

#123 - Log tagm classification

Issue - State: closed - Opened by lgatto about 6 years ago

#122 - Units test for tagm MAP and tagm MCMC

Pull Request - State: closed - Opened by ococrook about 6 years ago - 1 comment

#121 - Examples in TAGM-MAP and TAGM-MCMC

Issue - State: open - Opened by ococrook about 6 years ago - 4 comments
Labels: enhancement

#120 - Fix pkgdown::build_site() depolyment

Pull Request - State: closed - Opened by sgibb about 6 years ago - 1 comment

#119 - Travis deployment

Issue - State: closed - Opened by lgatto over 6 years ago - 4 comments

#118 - Improve memory handling of tagm-MCMC

Issue - State: open - Opened by ococrook over 6 years ago
Labels: enhancement

#117 - Code Review helper functions TAGM

Issue - State: open - Opened by ococrook over 6 years ago - 1 comment
Labels: enhancement

#116 - adding pool function to helper

Pull Request - State: closed - Opened by ococrook over 6 years ago

#115 - The tutorial link is 404

Issue - State: closed - Opened by ab604 over 6 years ago - 3 comments

#114 - svmClassification enters debugging mode

Issue - State: closed - Opened by kbarylyuk over 6 years ago - 2 comments

#113 - Document manual MCMC processing

Issue - State: open - Opened by lgatto over 6 years ago - 14 comments
Labels: enhancement

#112 - Parallel processing in tagmMcmcTrain

Issue - State: closed - Opened by lgatto over 6 years ago

#111 - Consider using UMAP embedding method

Issue - State: open - Opened by lgatto over 6 years ago - 6 comments

#110 - Rename TAGM-MAP features and train function

Issue - State: closed - Opened by lgatto over 6 years ago

#109 - tagmPredict probreturn: predictin and joint

Issue - State: closed - Opened by lgatto over 6 years ago - 2 comments

#108 - plot2D with t-SNE and duplicated features fails

Issue - State: closed - Opened by lgatto over 6 years ago
Labels: bug

#107 - Tagm

Pull Request - State: closed - Opened by lgatto over 6 years ago

#106 - Tagm

Pull Request - State: closed - Opened by ococrook over 6 years ago - 1 comment

#105 - highlightOnPlot without a default fcol fails

Issue - State: closed - Opened by lmsimp almost 7 years ago - 1 comment

#104 - Grid in plot2D

Issue - State: closed - Opened by nk448 almost 7 years ago - 3 comments

#103 - Add nipals method to plot2D

Issue - State: closed - Opened by lgatto about 7 years ago
Labels: enhancement

#102 - Is the QSep@xnorm really needed?

Issue - State: closed - Opened by sgibb almost 8 years ago - 2 comments

#101 - fix typos

Pull Request - State: closed - Opened by sgibb almost 8 years ago

#100 - Mac Builders Error

Issue - State: closed - Opened by LiNk-NY almost 8 years ago - 4 comments

#99 - Use different pre-processing for phenoDisco

Issue - State: closed - Opened by lgatto almost 8 years ago - 1 comment

#98 - Bioconductor builds failing

Issue - State: closed - Opened by LiNk-NY almost 8 years ago - 1 comment

#97 - Plot3d Documentation | permission denied

Issue - State: closed - Opened by Kohze almost 8 years ago - 6 comments

#96 - Review t-SNE algorithm

Issue - State: closed - Opened by lgatto almost 8 years ago - 12 comments

#95 - add for loop based calculation for mean distances

Pull Request - State: closed - Opened by sgibb almost 8 years ago - 2 comments

#94 - fix ytick label width in .plotQSep

Pull Request - State: closed - Opened by sgibb almost 8 years ago - 1 comment

#93 - highlightOnPlot and mirrorX mirrorY

Issue - State: closed - Opened by lmsimp about 8 years ago - 1 comment

#92 - bug in remap

Issue - State: closed - Opened by lmsimp about 8 years ago
Labels: bug

#91 - plotDist x-axis labelling

Issue - State: closed - Opened by lmsimp about 8 years ago - 1 comment

#90 - pRoloc fails to install

Issue - State: closed - Opened by prvst over 8 years ago - 2 comments

#89 - Error in ClustDist-class man

Issue - State: closed - Opened by lgatto over 8 years ago - 2 comments

#88 - goTermToID

Issue - State: closed - Opened by lmsimp over 8 years ago - 1 comment

#87 - New visualisations

Issue - State: closed - Opened by lgatto over 8 years ago

#86 - Add convex hulls to a PCA plot

Issue - State: closed - Opened by lgatto over 8 years ago - 2 comments

#85 - Issues with incomplete Biomart queries

Issue - State: closed - Opened by lgatto over 8 years ago - 1 comment

#84 - Write QSep unit test

Issue - State: closed - Opened by lgatto over 8 years ago - 1 comment

#83 - plot2D fcol = NULL and cex and pch

Issue - State: closed - Opened by lmsimp over 8 years ago - 3 comments

#82 - Recent updates in knntl

Issue - State: closed - Opened by lgatto over 8 years ago - 1 comment

#81 - New maxMarkers function?

Issue - State: closed - Opened by lmsimp over 8 years ago - 4 comments

#80 - New identifier in updated mouse pRolocmarkers

Issue - State: closed - Opened by lgatto over 8 years ago

#79 - Fix highlightOnPlot

Issue - State: closed - Opened by lmsimp over 8 years ago - 3 comments

#78 - Unit test in pRoloc failed

Issue - State: closed - Opened by lmsimp almost 9 years ago - 2 comments

#77 - Biomart down?

Issue - State: closed - Opened by lmsimp almost 9 years ago - 2 comments

#76 - rename addGoMarkers to addGoAnnotations

Issue - State: closed - Opened by lgatto almost 9 years ago - 5 comments

#75 - Unit testing

Issue - State: open - Opened by lgatto almost 9 years ago - 1 comment
Labels: enhancement

#74 - ClusterDist unit testing

Issue - State: closed - Opened by lgatto almost 9 years ago - 1 comment

#73 - error in ClustDistList-class example

Issue - State: closed - Opened by lgatto almost 9 years ago

#72 - Question about gomarkers branch

Issue - State: closed - Opened by lgatto almost 9 years ago

#71 - Vignette error

Issue - State: closed - Opened by lgatto almost 9 years ago

#70 - getLisaCol()

Issue - State: closed - Opened by lmsimp about 9 years ago - 6 comments

#69 - highlightOnPlot and FeaturesOfInterest requests

Issue - State: closed - Opened by lmsimp about 9 years ago - 2 comments

#68 - plot = FALSE with plot2D

Issue - State: closed - Opened by lmsimp about 9 years ago - 1 comment

#67 - plot2D method = "none"

Issue - State: closed - Opened by lmsimp about 9 years ago - 3 comments

#66 - Biomart error - can not set params

Issue - State: closed - Opened by lmsimp about 9 years ago - 1 comment

#64 - move2Ds does not work in RStudio

Issue - State: closed - Opened by lmsimp about 9 years ago - 2 comments

#62 - Explanation of Markers Matrix

Issue - State: closed - Opened by lmsimp over 9 years ago - 4 comments

#60 - overwriting of classification predictions

Issue - State: closed - Opened by lmsimp over 9 years ago - 1 comment

#57 - Update makeGoSet doc

Issue - State: open - Opened by lmsimp over 9 years ago - 4 comments

#55 - Marker infrastructure

Issue - State: closed - Opened by lgatto over 9 years ago

#52 - marker vectors and matrices

Issue - State: closed - Opened by lgatto over 9 years ago - 1 comment

#47 - knntl/theta unit test

Issue - State: closed - Opened by lgatto almost 10 years ago - 3 comments

#41 - Replace unique(getMarkers) with getClasses function

Issue - State: closed - Opened by lmsimp over 10 years ago - 2 comments

#40 - Clarification: sigma/gamma and (marco)-F1

Issue - State: closed - Opened by lgatto over 10 years ago
Labels: enhancement

#38 - Test all best params

Issue - State: closed - Opened by lgatto over 10 years ago

GitHub / lgatto/proloc issues and pull requests