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Snakemake—a scalable bioinformatics workflow engine
By Jit 2305 days agobioconda.github.io - Snakemake is a workflow engine that provides a readable Python-based workflow definition language and a powerful execution environment that scales from single-core workstations to compute clusters without modifying the workflow.Executing Snakemake
By Abhi 821 days agosnakemake.readthedocs.io - This part of the documentation describes the snakemake executable. Snakemake is primarily a command-line tool, so the snakemake executable is the primary way to execute, debug, and visualize...jobTree based python wrapper to run the genome simulation tool suite Evolver
By Jit 2573 days agogithub.com - evolverSimControl (eSC) can be used to simulate multi-chromosome genome evolution on an arbitrary phylogeny (Newick format). In addition to simply running evolver, eSC also automatically creates statistical summaries of the simulation...dcGOR
By Martin Jones 3699 days agoan R package for analysing ontologies and protein domain annotationsRCircos: an R package for Circos 2D track plots
By Jit 3140 days agobitbucket.org - RCircos package provides a simple and flexible way to make Circos 2D track plots with R and could be easily integrated into other R data processing and graphic manipulation pipelines for presenting large-scale multi-sample genomic research data. It...UpSetR: An R Package for the Visualization of Intersecting Sets and their Properties
By BioStar 2157 days agogithub.com - UpSetR generates static UpSet plots. The UpSet technique visualizes set intersections in a matrix layout and introduces aggregates based on groupings and queries. The matrix layout enables the effective representation of associated data,...R Package for PCA Analysis
By LEGE 275 days agorpubs.com - An R package for performing principal component analysis (PCA) of genomics data. The package performs PCA, generates the publication-ready plots, and identifies population-specific outlier individuals. The package can be accessed on...scikit-bio™ is an open-source, BSD-licensed, python package providing data structures, algorithms,...
By Jit 2489 days agohttp://scikit-bio.org/ - scikit-bio is currently in beta. We are very actively developing it, and backward-incompatible interface changes can and will arise. To avoid these types of changes being a surprise to our users, our public APIs are decorated to make it clear...regioneR: an R package for the management and comparison of genomic regions
By Jit 2205 days agogattaca.imppc.org - Regioner is an R package for the management and comparison of genomic regions. It offers a set of function for basic manipulation of region sets extending the functionality of GenomicRanges and a powerful and customizable permutation test framework....chromoMap-An R package for Interactive Visualization and Annotation of Chromosomes
By Neel 2083 days agocran.r-project.org - Provides interactive, configurable and elegant graphics visualization of the chromosomes or chromosome regions of any living organism allowing users to map chromosome elements (like genes, SNPs etc.) on the chromosome plot. It introduces a special...
