Pipeasm: a tool for automated large chromosome-scale genome assembly and evaluation
Silva, B. M.; Trindade, F. d. J.; Canesin, L. E. C.; Souza, G. B. S.; Aleixo, A.; Nunes, G. L.; Oliveira, R. R. M.
Show abstract
MotivationWith increasing initiatives to study biodiversity through high-quality reference genomes and the growing capacity of sequencing a wide range of organisms, there is a pressing need for an accessible, reproducible, and user-friendly tool that incorporates state-of-the-art methodologies for large genome assembly. ResultsWe introduce Pipeasm, a Snakemake pipeline designed for assembling vertebrate genomes using HiFi PacBio, ONT, and HiC data. By setting a configuration file with input information and suggested parameters, Pipeasm was able to assemble multiple-sized diploid genomes ready for manual curation. Availability and ImplementationPipeasm requires an environment with Snakemake and Singularity and is available at https://github.com/itvgenomics/pipeasm.
Matching journals
The top 5 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- PAQman: reference-free ensemble evaluation of long-read eukaryotic genome assemblies 97%
- WeavePop: A bioinformatics workflow to explore and analyze genomic variants of eukaryotic populations 96%
- High-Quality De Novo Genome Assembly for the Galapagos Endemic Lava Gull Using Oxford Nanopore Technologies 95%
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.