Name Mode Size
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NBth.R 100644 14 kb
NBthDE.R 100644 27 kb
NBthDE_nllopt.R 100644 1 kb
NBth_nllopt.R 100644 2 kb
NBthmDE.R 100644 16 kb
NBthmDE_feat.R 100644 5 kb
NBthmDE_rcovnll.R 100644 1 kb
PoisBG.R 100644 25 kb
PoisthNorm.R 100644 32 kb
PoisthNorm_nllopt.R 100644 1 kb
RcppExports.R 100644 2 kb
ScoreTest.R 100644 14 kb
aggreprobe.R 100644 10 kb
data.R 100644 1 kb
README.md
# GeoDiff ## Overview We present GeoDiff, an R package for count generating models for analyzing Geomx RNA data, demonstrated by example data analysis pipeline vignette. The package provides a series of statistical models using count generating distributions for fundamental tasks including background modelling, target and sample QC, normalization and differential expression analysis. The new methods are shown to be more suitable for these tasks in real examples than some conventional methods. It contains the definition of the NanoStringGeoMxSet class which inherits from Biobase’s ExpressionSet class and NanoStringRCCSet class. ## Installation ### Install the development version from GitHub ``` r install.packages("devtools") library("devtools") devtools::install_github("Nanostring-Biostats/GeoDiff", ref = "dev") ``` ## License This project is licensed under the [MIT license](LICENSE).