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recount
R package for the recount2 project. Documentation website: http://leekgroup.github.io/recount/derfinder
R package for DER Finder, a method for differential expression analysis of RNA-seq datapostpi
phenopredict
Use gene expression to predict phenotype sample informationnetworks_correction
Code to reproduce analysis in "Addressing confounding artifacts in reconstruction of gene co-expression networks"recount-website
Code for the Recount projectregionReport
Generate HTML report for a set of genomic regions or DESeq2/edgeR resultsballgown_code
analysis code used in Ballgown paperpolyester_code
code used for analysis presented in polyester paperlocfdr-python
Python implementation of Efron, Turnbull, and Narasimhan's R function locfdr v1.1-7, which computes local false discovery rates. See http://cran.r-project.org/web/packages/locfdr/ for more information.recount-contributions
Contribute your human Illumina RNA-seq data to recount2tablemaker
Preprocessing software for prepping Cufflinks output for Ballgownswfdr
Science-wise false discovery rate packagederfinderPlot
Plotting functions for derfinder resultsSet
Set packageenrichedRanges
enrichedRangessig2trial
Pipeline R package for creating simple gene signatures and testing their value in a clinical trial settingrecount-analyses
Example analyses using recountexplanatory_language
Data and code for the explanatory language papertestsetbias
Materials to reproduce test set bias analysis.regionReportSupp
Supplementary material for regionReport paperlibd_n36
derfinder analysis of LIBD post-mortem brain data (36 samples)Love Open Source and this site? Check out how you can help us