This sphinx extension redirects non-existent pages to working pages. Rediraffe can also check that deleted/renamed files in your git repo are redirected.

sly-named-readtables is an external contrib for SLY that enables different readtables to be active in different parts of the same file.

The Open Container Initiative develops specifications for standards on Operating System process and application containers. This package provides documentation, schemas and source of Golang module.

This package was automatically created by package AnnotationForge version 1.7.17. The exon-level probeset genome location was retrieved from Netaffx using AffyCompatible.

Optimize (lossless compress, optionally lossy) images (jpeg, png, gif, svg) using external utilities (advpng, gifsicle, jhead, jpeg-recompress, jpegoptim, jpegrescan, jpegtran, optipng, pngcrush, pngout, pngquant, svgo)

This package was automatically created by package AnnotationForge version 1.11.21. The probe sequence data was obtained from http://www.affymetrix.com. The file name was Plasmodium\_Anopheles\_probe\_tab.

Net::DNS::Resolver::Mock is a subclass of Net::DNS::Resolver, but returns static data from any provided DNS zone file instead of querying the network. It is intended primarily for use in testing.

This package provides support for generating and displaying fingering diagrams for baroque fingering recorders. Standard fingerings are provided for recorders in both C and F, along with methods to create and display alternate fingerings for trills, etc.

Store UCSC phastCons mm39 conservation scores AnnotationHub Resource Metadata. Provide provenance and citation information for UCSC phastCons mm39 conservation score AnnotationHub resources. Illustrate in a vignette how to access those resources.

OSGi, for Open Services Gateway initiative framework, is a module system and service platform for the Java programming language. This package contains a resolver service that resolves the specified resources in the context supplied by the caller.

one-more-re-nightmare is a regular expression engine that uses the technique presented in Regular-expression derivatives re-examined (Owens, Reppy and Turon, 2009; doi:10.1017/S0956796808007090) to interpret and compile regular expressions.

This Perl module is intended to easily test network connectivity to non-local Internet resources before functional tests begin. If the sockets cannot connect to the specified hosts and ports, the exception is caught and reported, and the tests skipped.

go-opt is a library to parse command line arguments based on tag annotations on struct fields. It came as a spin-off from aerc to deal with its internal commands.

This package provides genome-wide annotation for Heterorhabditis bacteriophora, primarily based on mapping using custom gene identifiers. This OrgDb annotation package is intended for use with AnnotationDbi-based tools and supports querying of gene identifiers and related metadata.

The ido-completing-read+ function is a wrapper for ido-completing-read. Importantly, it detects edge cases that ordinary ido cannot handle and either adjusts them so ido can handle them, or else simply falls back to the standard Emacs completion function instead.

This piece of code sets up some reader macros that make it simpler to input string literals which contain backslashes and double quotes This is very useful for writing complicated docstrings and, as it turns out, writing code that contains string literals that contain code themselves.

This library makes it possible to restrict the HTTP servers that can be used by the http-client and http-client-tls libraries. This is useful when a security policy needs to, e.g., prevent connections to HTTP servers on localhost or only allow connections to a specific server.

This package provides a new S4 class integrating Simple Features with the R package sf to bring geospatial data analysis methods based on vector data to spatial transcriptomics. Also implements management of spatial neighborhood graphs and geometric operations. This pakage builds upon SpatialExperiment and SingleCellExperiment, hence methods for these parent classes can still be used.

The package provides physics students at the University of Oldenburg with a prepared document class for writing laboratory reports for the laboratory courses conducted by the Institute of Physics. The document class consists of predefinded margins and heading formats. Furthermore, it presets the headers of the pages and excludes the titlepage and table of contents from the page numbering.

This package may optionally be used by students at Carmel High School in Indiana in the United States to write physics lab reports for FW physics courses. As many students are beginners at LaTeX, it also attempts to simplify the report-writing process by offering macros for commonly used notation and by automatically formatting the documents for students who will only use TeX for mathematics and not typesetting.

tidySingleCellExperiment is an adapter that abstracts the SingleCellExperiment container in the form of a tibble'. This allows *tidy* data manipulation, nesting, and plotting. For example, a tidySingleCellExperiment is directly compatible with functions from tidyverse packages `dplyr` and `tidyr`, as well as plotting with `ggplot2` and `plotly`. In addition, the package provides various utility functions specific to single-cell omics data analysis (e.g., aggregation of cell-level data to pseudobulks).

pytest-random-order is a Pytest plugin that randomizes the order of tests. This can be useful to detect a test that passes just because it happens to run after an unrelated test that leaves the system in a favourable state. The plugin allows user to control the level of randomness they want to introduce and to disable reordering on subsets of tests. Tests can be rerun in a specific order by passing a seed value reported in a previous test run.

The tidySummarizedExperiment package provides a set of tools for creating and manipulating tidy data representations of SummarizedExperiment objects. SummarizedExperiment is a widely used data structure in bioinformatics for storing high-throughput genomic data, such as gene expression or DNA sequencing data. The tidySummarizedExperiment package introduces a tidy framework for working with SummarizedExperiment objects. It allows users to convert their data into a tidy format, where each observation is a row and each variable is a column. This tidy representation simplifies data manipulation, integration with other tidyverse packages, and enables seamless integration with the broader ecosystem of tidy tools for data analysis.

Affymetrix rta10 annotation data (chip rta10transcriptcluster) assembled using data from public repositories.