Release Notes - v1.0.0 (Initial Official Release)

Official release of the first stable version of POLY_PIPELINE. Spatial Transcriptomics pipeline developed to solve polyploids issues, becoming polyvalent in the capacity of analyzing any organism and data input type.

Highlights

• Standard Spatial Analysis: Integration of a suite of packages for analyzing spatial transcriptomics data, including all clustering, HVG and statistical significance determination, generating comprehensive output files.
• Anchoring Analysis: Novel anchoring mehod developed for determining regions besides clustering analysis.
• Network Analysis: Generation of nodes and edges for netework analysis from original data.
• Multi HPC Support: Full compatibility implemented for both PBS and SGE job schedulers, ensuring scalability on High-Performance Computing (HPC) environments.
• Data Converter: Implementation of converter capable of dealing with any input data to the proper file for downstream analysis.

Benchmarking

• Even though developed to solve polyploids issues with Wheat (Triticum aestivum L.), the pipeline also shows success processing data from Arabidopsis thaliana, rice (Oryza sativa) and mouse (Mus musculus)

For a full list of commits and technical changes, see the Full Changelog