The Pop-gen Pipeline Platform: A Software Platform for Facilitating Population Genomic Analyses
Webb, A.; Knoblauch, J.; Sabankar, N.; Sukesh Kallur, A.; Hey, J.; Sethuraman, A.
Show abstract
Here we present the Pop-Gen Pipeline Platform (PPP), a software platform with the goal of reducing the computational expertise required for conducting population genomic analyses. The PPP was designed as a collection of scripts that facilitate common population genomic workflows in a consistent and standardized Python environment. Functions were developed to encompass entire workflows, including: input preparation, file format conversion, various population genomic analyses, output generation, and visualization. By facilitating entire workflows, the PPP offers several benefits to prospective end users - it reduces the need of redundant in-house software and scripts that would require development time and may be error-prone, or incorrect. The platform has also been developed with reproducibility and extensibility of analyses in mind. The PPP is an open-source package that is available for download and use at https://ppp.readthedocs.io/en/latest/PPP_pages/install.html
Matching journals
The top 3 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Multithreaded variant calling in elPrep 5 94%
- Sample Size Impact (SaSii): an R script for estimating optimal sample sizes in population genetics and population genomics studies 94%
- NGSpop: A desktop software that supports population studies by identifying sequence variations from next-generation sequencing data 94%
Similar papers in this journal
Similar papers in this journal
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.