BIOCONDUCTOR . ORG {
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Title:
Bioconductor - mitch
Description:
mitch is an R package for multi-contrast enrichment analysis. At it’s heart, it uses a rank-MANOVA based statistical approach to detect sets of genes that exhibit enrichment in the multidimensional space as compared to the background. The rank-MANOVA concept dates to work by Cox and Mann (https://doi.org/10.1186/1471-2105-13-S16-S12). mitch is useful for pathway analysis of profiling studies with one, two or more contrasts, or in studies with multiple omics profiling, for example proteomic, transcriptomic, epigenomic analysis of the same samples. mitch is perfectly suited for pathway level differential analysis of scRNA-seq data. We have an established routine for pathway enrichment of Infinium Methylation Array data (see vignette). The main strengths of mitch are that it can import datasets easily from many upstream tools and has advanced plotting features to visualise these enrichments.
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Keywords {🔍}
bioconductor, package, mitch, packages, version, analysis, enrichment, release, pathway, source, data, install, license, reports, binary, learn, developers, started, software, multicontrast, rankmanova, profiling, studies, infinium, methylation, array, mark, ziemann, aut, cph, installation, start, enter, documentation, system, html, script, text, details, bioc, stats, url, httpsgithubcommarkziemannmitch, macos, mitchtgz, repository, git, clone, code, registration,
Topics {✒️}
org/packages/mitch source repository /markziemann/mitch bug reports multi-contrast enrichment analysis rank-manova concept dates joint galaxy/bioconductor conference bioconductor release tgz source repository source package release //code bioconductor support site scrna-seq data import datasets easily advanced plotting features antony kaspi [aut script reference manual gz windows binary zip macos binary tgz macos binary script mitch workflow multiple omics profiling mark ziemann [aut package installed git clone https details biocviews network system requirements packages started install package pathway enrichment pathway analysis exhibit enrichment /markziemann/mitch epigenomic analysis bioconductor //bioconductor applying mitch registration open detect sets multidimensional space //doi 1186/1471-2105-13-s16-s12 profiling studies perfectly suited established routine main strengths upstream tools cph] orcid cph] maintainer quietly = true
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