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NOTICE

BigOmics Analytics OmicsPlaygroud

Copyright (c) 2020-2024 BigOmics Analytics

This product includes software developed at BigOmics Analytics (http://www.bigomics.ch/).

Source Code

The project maintains the following source code repositories:

Authors

Omics Playground is written by:

Third-party Content

The project uses the following third-party content:

  • AnnotationDbi 1.52.0 Artistic-2.0
  • base 4.0.4 Part of R 4.0.4
  • batchelor 1.6.3 GPL-3
  • beeswarm 0.4.0 Artistic-2.0
  • BiocManager 1.30.16 Artistic-2.0
  • biomaRt 2.46.3 Artistic-2.0
  • Biostrings 2.58.0 Artistic-2.0
  • Boruta 7.0.0 GPL (>= 2)
  • cgdsr 1.3.0 LGPL-3
  • circlize 0.4.13 MIT + file LICENSE
  • colorspace 2.0-2 BSD_3_clause + file LICENSE
  • ComICS 1.0.4 GPL-2
  • ComplexHeatmap 2.6.2 MIT + file LICENSE
  • corpcor 1.6.10 GPL (>= 3)
  • corpora 0.5 GPL-3
  • corrplot 0.90 MIT + file LICENSE
  • cowplot 1.1.1 GPL-2
  • curatedTCGAData 1.12.1 Artistic-2.0
  • data.table 1.14.2 MPL-2.0 | file LICENSE
  • DeconRNASeq 1.32.0 GPL-2
  • DESeq2 1.30.1 LGPL (>= 3)
  • devtools 2.4.2 MIT + file LICENSE
  • doParallel 1.0.16 GPL-2
  • dplyr 1.0.7 MIT + file LICENSE
  • DT 0.19 GPL-3 | file LICENSE
  • edgeR 3.32.1 GPL (>=2)
  • EnsDb.Hsapiens.v86 2.99.0 Artistic-2.0
  • EnsDb.Mmusculus.v79 2.99.0 Artistic-2.0
  • fastcluster 1.2.3 FreeBSD | GPL-2 | file LICENSE
  • fgsea 1.16.0 MIT + file LICENCE
  • FNN 1.1.3 GPL (>= 2)
  • genefilter 1.72.1 Artistic-2.0
  • GenomicDataCommons 1.14.0 Artistic-2.0
  • GenomicFeatures 1.42.3 Artistic-2.0
  • GEOquery 2.58.0 GPL-2
  • ggplot2 3.3.5 MIT + file LICENSE
  • ggrepel 0.9.1 GPL-3 | file LICENSE
  • ggsci 2.9 GPL-3 | file LICENSE
  • glasso 1.11 GPL-2
  • glmnet 4.1-2 GPL-2
  • gplots 3.1.1 GPL-2
  • graphics 4.0.4 Part of R 4.0.4
  • grDevices 4.0.4 Part of R 4.0.4
  • grid 4.0.4 Part of R 4.0.4
  • GSVA 1.38.2 GPL (>= 2)
  • harmony 1.0 GPL-3 + file LICENSE
  • homologene 1.4.68.19.3.27 MIT + file LICENSE
  • htmlwidgets 1.5.4 MIT + file LICENSE
  • httr 1.4.2 MIT + file LICENSE
  • igraph 1.2.7 GPL (>= 2)
  • iheatmapr 0.5.1 MIT + file LICENSE
  • irlba 2.3.3 GPL-3
  • ISOpureR 1.1.3 GPL-2
  • isva 1.9 GPL-2
  • jpeg 0.1-9 GPL-2 | GPL-3
  • KEGG.db 3.2.4 file LICENSE
  • liger 2.0.1 GPL-3 | file LICENSE
  • limma 3.46.0 GPL (>=2)
  • magick 2.7.3 MIT + file LICENSE
  • maptools 1.1-2 GPL (>= 2)
  • MASS 7.3-53.1 GPL-2 | GPL-3
  • Matrix 1.3-4 GPL (>= 2) | file LICENCE
  • Matrix 1.3-2 GPL (>= 2) | file LICENCE
  • matrixTests 0.1.9.1 GPL-2
  • metap 1.5 GPL-2
  • miniUI 0.1.1.1 GPL-3
  • mixOmics 6.14.1 GPL (>= 2)
  • MultiAssayExperiment 1.16.0 Artistic-2.0
  • NNLM 0.4.4 BSD_2_clause + file LICENSE
  • org.Hs.eg.db 3.12.0 Artistic-2.0
  • org.Mm.eg.db 3.12.0 Artistic-2.0
  • parallel 4.0.4 Part of R 4.0.4
  • partykit 1.2-15 GPL-2 | GPL-3
  • patchwork 1.1.1 MIT + file LICENSE
  • pcaMethods 1.82.0 GPL (>= 3)
  • plotly 4.10.0 MIT + file LICENSE
  • pls 2.8-0 GPL-2
  • plyr 1.8.6 MIT + file LICENSE
  • png 0.1-7 GPL-2 | GPL-3
  • ppcor 1.1 GPL-2
  • preprocessCore 1.52.1 LGPL (>= 2)
  • psych 2.1.9 GPL (>= 2)
  • qgraph 1.9 GPL-2
  • qlcMatrix 0.9.7 GPL-3
  • qvalue 2.22.0 LGPL
  • randomForest 4.6-14 GPL (>= 2)
  • randomForestSRC 2.13.0 GPL (>= 3)
  • RColorBrewer 1.1-2 Apache License 2.0
  • recount 1.16.1 Artistic-2.0
  • remotes 2.4.1 MIT + file LICENSE
  • reshape2 1.4.4 MIT + file LICENSE
  • rgeolocate 1.4.1 Apache License (== 2.0)
  • rhdf5 2.34.0 Artistic-2.0
  • rliger 1.0.0 GPL-3
  • rpart 4.1-15 GPL-2 | GPL-3
  • Rtsne 0.15 file LICENSE
  • scales 1.1.1 MIT + file LICENSE
  • scatterD3 1.0.1 GPL (>= 3)
  • scran 1.18.7 GPL-3
  • Seurat 4.0.5 GPL-3 | file LICENSE
  • shiny 1.7.1 GPL-3 | file LICENSE
  • shinyalert 2.0.0 MIT + file LICENSE
  • shinyBS 0.61 GPL-3
  • shinydashboard 0.7.2 GPL (>= 2) | file LICENSE
  • shinydashboardPlus 2.0.3 GPL (>= 2) | file LICENSE
  • shinyjqui 0.4.0 MIT + file LICENSE
  • shinyWidgets 0.6.2 GPL-3
  • signatureSearch 1.4.6 Artistic-2.0
  • SILGGM 1.0.0 GPL (>= 2)
  • SmartSVA 0.1.3 GPL-3
  • stats 4.0.4 Part of R 4.0.4
  • SummarizedExperiment 1.20.0 Artistic-2.0
  • survival 3.2-7 LGPL (>= 2)
  • survminer 0.4.9 GPL-2
  • sva 3.38.0 Artistic-2.0
  • TCGAretriever 1.5 GPL-2
  • tidyr 1.1.4 MIT + file LICENSE
  • tools 4.0.4 Part of R 4.0.4
  • TxDb.Hsapiens.UCSC.hg19.knownGene 3.2.2 Artistic-2.0
  • TxDb.Mmusculus.UCSC.mm10.knownGene 3.10.0 Artistic-2.0
  • tximport 1.18.0 GPL (>=2)
  • umap 0.2.7.0 MIT + file LICENSE
  • UNDO 1.32.0 GPL-2
  • utils 4.0.4 Part of R 4.0.4
  • uwot 0.1.10 GPL (>= 3)
  • vioplot 0.3.7 BSD_3_clause + file LICENSE
  • viridis 0.6.2 MIT + file LICENSE
  • visNetwork 2.1.0 MIT + file LICENSE
  • webshot 0.5.2 GPL-2
  • WGCNA 1.70-3 GPL (>= 2)
  • wordcloud 2.6 LGPL-2.1
  • xgboost 1.4.1.1 Apache License (== 2.0) | file