62 Open Source Bioconductor Software Projects
Free and open source bioconductor code projects including engines, APIs, generators, and tools.
Xcms 81 ⭐
This is the git repository matching the Bioconductor package xcms: LC/MS and GC/MS Data Analysis
Dmrseq 44 ⭐
R package for Inference of differentially methylated regions (DMRs) from bisulfite sequencing
Rforproteomics 40 ⭐
Using R and Bioconductor packages for the analysis and comprehension of proteomics data.
Singlecellexperiment 39 ⭐
Clone of the Bioconductor repository for the SingleCellExperiment package, see https://bioconductor.org/packages/devel/bioc/html/SingleCellExperiment.html for the official development version.
Derfinder 40 ⭐
Annotation-agnostic differential expression analysis of RNA-seq data via expressed regions-level or single base-level approaches
Pcaexplorer 38 ⭐
pcaExplorer - Interactive exploration of Principal Components of Samples and Genes in RNA-seq data
Microarray Analysis 36 ⭐
Materials on the analysis of microarray expression data; focus on re-analysis of public data ( http://tinyurl.com/cruk-microarray)
Wdlrunr 34 ⭐
Elastic, reproducible, and reusable genomic data science tools from R backed by cloud resources
Tcgabiolinksgui 31 ⭐
TCGAbiolinksGUI code development for R/Bioconductor submission http://tcgabiolinks.fmrp.usp.br:3838/
Ngs In Bioc 28 ⭐
A course on Analysing Next Generation (/High Throughput etc..) Sequencing data using Bioconductor
Bioconductor_full 25 ⭐
DEPRECATED - Docker Images which include a complete installation of all software needed to build all Bioconductor packages
Tcgaworkflow 22 ⭐
TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages
Rcpi 18 ⭐
Molecular informatics toolkit with a comprehensive integration of bioinformatics and cheminformatics tools for drug discovery.
Risa 17 ⭐
Risa allows to access metadata/data in ISA-tab format and builds Bioconductor data structures. Apart from parsing ISA-tab files, the package also provides functionality to save the ISA-tab dataset, or each of its individual files. Additionally, it is also possible to update assay files. Currently, metadata associated to proteomics and metabolomics-based assays (i.e. mass spectrometry) can be processed into an xcmsSet object (from the xcms R package).
Bioc_2020_tidytranscriptomics 18 ⭐
Workshop on tidytranscriptomics: Performing tidy transcriptomics analyses with tidybulk, tidyverse and tidyheatmap
Esatac 18 ⭐
Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis
Biocpkgtools 16 ⭐
Computable build reports, package metadata, and download stats from the Bioconductor project
Melonnpan 16 ⭐
Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
Circtools 12 ⭐
circtools: a modular, python-based framework for circRNA-related tools that unifies several functionalities in a single, command line driven software.