| Package Name | Access | Summary | Updated |
|---|---|---|---|
| atlas-bash-util | public | Generic Bash functions used to build Expression Atlas. | 2025-05-02 |
| atlas-anndata | public | Functions for preparing annData files for experiment inclusion in Single cell Expression Atlas | 2025-03-25 |
| atlas-web-sc-cli | public | A minimal Spring Boot wrapper to run Single Cell Expression Atlas tasks from the command line. | 2025-03-25 |
| atlas-web-bulk-cli | public | A minimal Spring Boot wrapper to run (bulk) Expression Atlas tasks from the command line. | 2025-03-25 |
| atlas-gene-annotation-manipulation | public | Scripts for manipulating gene annotation | 2025-03-25 |
| atlas-data-import | public | Scripts for extracting expression- and metadata from SCXA in a programmatic way. | 2025-03-25 |
| atlas-experiment-metadata | public | Metadata handling scripts for Atlas | 2025-03-25 |
| perl-atlas-modules | public | A package exporting in-house perl functions and classes used in the data production of EMBL-EBI Expression Atlas data. | 2025-03-25 |
| atlas-fastq-provider | public | A package to provide FASTQs via download or file system linking | 2025-03-25 |
| r-atlas-internal | public | A package exporting functions and classes used in the representation and analysis of EMBL-EBI Expression Atlas data. | 2025-03-25 |
| irap-components | public | A lightweight distribution of iRAP without binaries. Nuno Fonseca's iRAP tool is an integrated RNA-seq anlaysis pipeline. It's based on Make to link workflow steps and has old-style dependency management whereby a monolithic install process installs binaries distributed with the the tool. This package installs a fork of the iRAP code where the distributed binaries have been removed. The idea is that individual parts of the iRAP codebase can be utiled outside of iRAP's Make workflow and using Conda's dependency management. THIS IS AN ALPHA PROJECT AND SHOULD NOT BE RELIED UPON. | 2025-03-25 |
| irap-bamutils | public | This is the bam utils library distributed as part of iRAP | 2025-03-25 |
