tomasbruna
Genome Data Scientist at JGI
Joint Genome Institute, Lawrence Berkeley National LaboratoryBerkeley, CA
Pinned Repositories
BRAKER
BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eukaryotic genomes
GALBA
GALBA is a pipeline for fully automated prediction of protein coding gene structures with AUGUSTUS in novel eukaryotic genomes for the scenario where high quality proteins from one or several closely related species are available.
ProtHint
Protein hint generation pipeline for gene finding in eukaryotic genomes
nemo
File browser for Cinnamon
miniprothint
Miniprothint selects a set of reliable gene prediction hints from miniprot alignments scored by miniprot boundary scorer.
orthodb-clades
Generation of OrthoDB protein sets for gene prediction experiments
pollen-predictions
Final Project for Georgia Tech's Biostatistics class focusing on Atlanta's pollen levels predictions
tomasbruna's Repositories
tomasbruna/orthodb-clades
Generation of OrthoDB protein sets for gene prediction experiments
tomasbruna/miniprothint
Miniprothint selects a set of reliable gene prediction hints from miniprot alignments scored by miniprot boundary scorer.
tomasbruna/pollen-predictions
Final Project for Georgia Tech's Biostatistics class focusing on Atlanta's pollen levels predictions
tomasbruna/bioconda-recipes
Conda recipes for the bioconda channel.
tomasbruna/clustering-benchmark
tomasbruna/miniprot-boundary-scorer
Miniprot boundary scorer parses introns, starts, stops and exons from miniprot's alignment output and scores them based on local alignment quality
tomasbruna/clueminer
interactive clustering platform
tomasbruna/cromwell
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
tomasbruna/diamond
Accelerated BLAST compatible local sequence aligner.
tomasbruna/Folder-Structure-Conventions
Folder / directory structure options and naming conventions for software projects
tomasbruna/gitignore
A collection of useful .gitignore templates
tomasbruna/Liftoff
An accurate GFF3/GTF lift over pipeline
tomasbruna/nemo
File browser for Cinnamon
tomasbruna/nemo-extensions
tomasbruna/ProtHint
Protein hint generation pipeline for gene finding in eukaryotic genomes
tomasbruna/pyrodigal
Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
tomasbruna/wdl
Workflow Description Language - Specification and Implementations