Results for "python"
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Dash is a web application framework that provides pure Python abstraction around HTML, CSS, and JavaScript. Dash Bio is a suite of bioinformatics components that make it simpler to analyze and visualize bioinformatics data and interact with them in a Dash application. The source can be found on...Tags: Dash, web, application, framework, Python, abstraction, HTML, CSS, JavaScript
1658 days ago
- The Environment for Tree Exploration (ETE) is a Python programming toolkit that assists in the recontruction, manipulation, analysis and visualization of phylogenetic trees (although clustering trees or any other tree-like data structure are also supported). Other tools https://github.com/shenw...
Tags: Environment, Tree, Exploration, ETE, Python, toolkit, recontruction, manipulation, analysis, visualization, phylogenetic, trees
1636 days ago
Nucleus: Python and C++ code for reading and writing genomics data.
Nucleus is a library of Python and C++ code designed to make it easy to read, write and analyze data in common genomics file formats like SAM and VCF. In addition, Nucleus enables painless integration with the TensorFlow machine learning framework, as anywhere a genomics file is consumed or produ...Tags: Nucleus, Python, C++, code, reading, writing, genomics
1569 days ago
JCVI:Python utility libraries on genome assembly, annotation and comparative genomics
Collection of Python libraries to parse bioinformatics files, or perform computation related to assembly, annotation, and comparative genomics. https://github.com/tanghaibao/jcvi More at https://github.com/tanghaibao/jcvi/wikiTags: JCVI, Python, utility, libraries, genome, assembly, annotation, comparative, genomics, synteny, plots
1525 days ago
- Flanker, a Python package which performs alignment-free clustering of gene flanking sequences in a consistent format, allowing investigation of mobile genetic elements (MGEs) without prior knowledge of their structure. Flanker can be flexibly parameterised to finetune outputs by charact...
Tags: Flanker, Python, mobile, genetic, elements, HGT, genome, genes
1177 days ago
Luigi: a Python package that helps you build complex pipelines of batch jobs.
Luigi is a Python (3.6, 3.7, 3.8, 3.9 tested) package that helps you build complex pipelines of batch jobs. It handles dependency resolution, workflow management, visualization, handling failures, command line integration, and much more. Run pip install luigi to install the latest stable version...Tags: Luigi, Python, package, build, complex, pipelines, batch, jobs
1061 days ago
jobTree based python wrapper to run the genome simulation tool suite Evolver
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 as it runs including text and image files. Also...Tags: jobTree, python, wrapper, genome, simulation, tool, suite, Evolver
2354 days ago
- 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 to users when an API can be relied upon (stable) ...
Tags: scikit-bio, open-source, python, package, algorithms, educational, resources, bioinformatics
2271 days ago
snakepipes: A toolkit based on snakemake and python for analysis of NGS data
snakePipes are flexible and powerful workflows built using snakemake that simplify the analysis of NGS data. DNA-mapping* ChIP-seq* RNA-seq* ATAC-seq* scRNA-seq Hi-C Whole Genome Bisulfite Seq/WGBS (*Also available in "allele-specific" mode) snakePipes can be installed via ...Tags: snakepipes, toolkit, snakemake, python, analysis, NGS
1817 days ago
- CONTIGuator is a Python script for Linux environments whose purpose is to speed-up the bacterial genome assembly process and to obtain a first insight of the genome structure using the well-known artemis comparison tool (ACT).
Tags: CONTIGuator, python, assembly, bacteria, structure
1690 days ago
