Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / ELELAB/Moonlight2R issues and pull requests

#131 - TFinfluence should use rasp, foldx consensus.

Issue - State: open - Opened by annamelidi 17 days ago
Labels: enhancement

#130 - Fix mutation_available column

Pull Request - State: open - Opened by annamelidi 19 days ago

#129 - TFinfluence output fix mutation_available column

Issue - State: open - Opened by annamelidi 19 days ago
Labels: invalid

#128 - BioC build fails with WARNING for 3.21

Issue - State: open - Opened by mtiberti about 1 month ago

#127 - TFinfluence update

Pull Request - State: closed - Opened by annamelidi about 2 months ago

#126 - Fix 123 TFinfluence extra

Pull Request - State: closed - Opened by annamelidi about 2 months ago - 1 comment

#125 - Updates versioning with latest BioConductor 3.20 release

Pull Request - State: closed - Opened by mtiberti 2 months ago

#122 - Fixes version numbering due to Bioconductor 3.19 release

Pull Request - State: closed - Opened by mtiberti 9 months ago

#120 - TF influence function

Pull Request - State: closed - Opened by katmeld 10 months ago - 1 comment

#119 - Add TF influence layer

Issue - State: closed - Opened by katmeld 10 months ago

#118 - updated parallel backend in URA

Pull Request - State: closed - Opened by mona-n 11 months ago

#117 - error R CMD build on BioC 3.19

Issue - State: closed - Opened by mona-n 11 months ago

#116 - update data/datalist with new data added following GMA

Issue - State: closed - Opened by mona-n 12 months ago

#115 - updated GRN test for arm64 arch

Pull Request - State: closed - Opened by mona-n over 1 year ago

#114 - test failure on arm64 BioC builder

Issue - State: closed - Opened by mtiberti over 1 year ago

#113 - Fixes BioC timeout on `R CMD check`

Pull Request - State: closed - Opened by mtiberti over 1 year ago

#112 - `R CMD check` timeouts on BioC

Issue - State: closed - Opened by mtiberti over 1 year ago

#111 - added data loading in all functions

Pull Request - State: closed - Opened by mona-n over 1 year ago

#109 - Fix108 data load vignette

Pull Request - State: closed - Opened by mona-n over 1 year ago

#108 - Problems when manually rerunning vignette

Issue - State: closed - Opened by mona-n over 1 year ago

#107 - Updates manual pages following code revision

Pull Request - State: closed - Opened by mtiberti over 1 year ago

#106 - Fix79 code style

Pull Request - State: closed - Opened by mona-n over 1 year ago

#105 - adds version bump to 0.99.9

Pull Request - State: closed - Opened by mtiberti over 1 year ago

#104 - version bump to 0.99.9

Issue - State: closed - Opened by mtiberti over 1 year ago

#103 - moved `globalVariables` call after func def

Pull Request - State: closed - Opened by mtiberti over 1 year ago

#101 - updated bioRxiv reference to publication

Pull Request - State: closed - Opened by mona-n over 1 year ago

#100 - removed titleMain hard-coded in plotFEA function

Pull Request - State: closed - Opened by mona-n over 1 year ago

#99 - Fix76 description updates

Pull Request - State: closed - Opened by mona-n over 1 year ago

#98 - titleMain in plotFEA is hard-coded

Issue - State: closed - Opened by mona-n over 1 year ago

#97 - fixed line width of example in GLS

Pull Request - State: closed - Opened by mona-n over 1 year ago

#96 - Fix78 sequence construct

Pull Request - State: closed - Opened by mona-n over 1 year ago

#95 - Fix75 binding variables

Pull Request - State: closed - Opened by mona-n over 1 year ago

#94 - Example line in GLS wider than 100 characters

Issue - State: closed - Opened by mona-n over 1 year ago

#93 - Fixes vignette build issues

Pull Request - State: closed - Opened by mtiberti over 1 year ago

#92 - Vignette build fails with error

Issue - State: closed - Opened by mtiberti over 1 year ago

#91 - Version bump for PR #77

Pull Request - State: closed - Opened by mtiberti over 1 year ago

#90 - switched dontrun to donttest in examples of functions

Pull Request - State: closed - Opened by mona-n over 1 year ago

#89 - updated eval equals false to true in vignette

Pull Request - State: closed - Opened by mona-n over 1 year ago

#88 - updated REAME and CITATION files to include publication

Issue - State: closed - Opened by mona-n over 1 year ago

#87 - checked for user input in all functions

Pull Request - State: closed - Opened by mona-n over 1 year ago

#86 - switched sapply to vapply in plotCircos function

Pull Request - State: closed - Opened by mona-n over 1 year ago

#85 - Updates news file

Pull Request - State: closed - Opened by mtiberti over 1 year ago

#84 - Bumps version to 0.99.2

Pull Request - State: closed - Opened by mtiberti over 1 year ago

#83 - bump version before pushing to BioC

Issue - State: closed - Opened by mtiberti over 1 year ago

#82 - Update eval = FALSE chunks in vignette

Issue - State: closed - Opened by mona-n over 1 year ago

#81 - Check user inputs in functions

Issue - State: closed - Opened by mona-n over 1 year ago

#80 - Switch \dontrun in examples to \donttest

Issue - State: closed - Opened by mona-n over 1 year ago

#79 - Update code style in functions

Issue - State: closed - Opened by mona-n over 1 year ago

#78 - Update how sequences are defined

Issue - State: closed - Opened by mona-n over 1 year ago

#77 - Switch from sapply to vapply

Issue - State: closed - Opened by mona-n over 1 year ago

#76 - DESCRIPTION file updates

Issue - State: closed - Opened by mona-n over 1 year ago

#75 - No visible bindings for global variable NOTE

Issue - State: closed - Opened by mona-n over 1 year ago

#74 - NAMESPACE updates

Issue - State: closed - Opened by mona-n over 1 year ago - 2 comments

#73 - added unit tests using testthat

Pull Request - State: closed - Opened by mona-n over 1 year ago

#72 - Fix69 methyl layer

Pull Request - State: closed - Opened by mona-n over 1 year ago

#71 - Change data infrastructure

Issue - State: closed - Opened by mona-n over 1 year ago

#70 - Add unit tests

Issue - State: closed - Opened by mona-n over 1 year ago

#69 - Add methylation layer to Moonlight

Issue - State: closed - Opened by mona-n over 1 year ago

#68 - added changes from MoonlightR in README

Pull Request - State: closed - Opened by mona-n over 1 year ago

#66 - Fix65 text mining

Pull Request - State: closed - Opened by mona-n over 1 year ago

#65 - Add text mining feature to Moonlight2R

Issue - State: closed - Opened by mona-n over 1 year ago

#64 - Add driver indel annotations from dbCID database

Issue - State: closed - Opened by mona-n over 1 year ago

#63 - updated load of libraries in vignette

Pull Request - State: closed - Opened by mona-n over 1 year ago

#62 - test vignette installation

Issue - State: closed - Opened by mona-n over 1 year ago

#61 - Fixes `WARNING` regarding empty `return` for some docs

Pull Request - State: closed - Opened by mtiberti almost 2 years ago

#60 - WARNING in auto-builders report

Issue - State: closed - Opened by mtiberti almost 2 years ago

#59 - removes `appveyor.yaml`

Pull Request - State: closed - Opened by mtiberti almost 2 years ago

#58 - `appveyor.yaml` needs to be removed

Issue - State: closed - Opened by mtiberti almost 2 years ago

#57 - added BioC installation to vignette

Pull Request - State: closed - Opened by mona-n almost 2 years ago

#56 - subset some of the examples to make them run faster

Pull Request - State: closed - Opened by mtiberti almost 2 years ago

#55 - tests are a little slow

Issue - State: closed - Opened by mtiberti almost 2 years ago - 1 comment

#54 - adds R version in DESCRIPTION

Pull Request - State: closed - Opened by mtiberti almost 2 years ago

#53 - Add R version in `DESCRIPTION`

Issue - State: closed - Opened by mtiberti almost 2 years ago - 1 comment

#52 - update installation guidelines in vignette

Issue - State: closed - Opened by mona-n almost 2 years ago

#51 - Fix42 bioccheck new

Pull Request - State: closed - Opened by mona-n almost 2 years ago

#50 - Fixes documentation standards

Pull Request - State: closed - Opened by mtiberti almost 2 years ago

#49 - Fixes documentation according to BioC standards

Pull Request - State: closed - Opened by mtiberti almost 2 years ago

#48 - Some documentation/metadata don't conform to BioC standards

Issue - State: closed - Opened by mtiberti almost 2 years ago

#47 - fixed bioccheck errors and warnings

Pull Request - State: closed - Opened by mona-n almost 2 years ago

#46 - Fix44 package size

Pull Request - State: closed - Opened by mona-n almost 2 years ago

#45 - `R CMD check` takes more than 10 minutes

Issue - State: closed - Opened by mtiberti almost 2 years ago - 1 comment

#44 - Source package for Moonlight2R is > 5MB

Issue - State: closed - Opened by mtiberti almost 2 years ago

#43 - updated dataMaf to dataMAF in DMA function

Pull Request - State: closed - Opened by mona-n almost 2 years ago

#42 - `ERRORs`/`WARNINGs` in `BiocCheck('new-package'=TRUE)`

Issue - State: closed - Opened by mtiberti almost 2 years ago

#41 - `ERROR`s/`WARNING`s in `R CMD check`

Issue - State: closed - Opened by mtiberti almost 2 years ago

#40 - updated vignette following TCGAbiolinks dependency removal

Pull Request - State: closed - Opened by mona-n almost 2 years ago - 1 comment

#39 - updated default values of nGenesPerm and nBoot in GRN

Pull Request - State: closed - Opened by mona-n almost 2 years ago

#38 - Fix35 tcgabiolinks removal

Pull Request - State: closed - Opened by mona-n almost 2 years ago

#37 - update default values of nGenesPerm and nBoot in GRN function

Issue - State: closed - Opened by mona-n almost 2 years ago

#35 - removal or revision of functions dependent on TCGAbiolinks

Issue - State: closed - Opened by mona-n almost 2 years ago

#34 - installation crash with R version 4.1.0

Issue - State: closed - Opened by elenapapaleo about 2 years ago - 1 comment

#33 - added liftOver package to DESCRIPTION file

Pull Request - State: closed - Opened by mona-n about 2 years ago