nf-coremag

dnaPipeTE (do not assemble - PipelinE for Transposable Elements) is a bioinformatics pipeline for estimating the proportion and landscape of transposable elements (TEs) and other repeats in a genome f

2 shared topics • 2 shared operations

GenomeScope — reference-free genome profiling from k-mer count histograms. Estimates genome size, heterozygosity, and repeat content using a negative binomial mixture model. Supports diploid (GenomeSc

2 shared topics • 2 shared operations

Inspector — long-read-based genome assembly evaluation and error correction. Use for: assembly quality assessment, QV (quality value) score calculation, structural error detection, small-scale error p

2 shared topics • 2 shared operations

nf-core/viralrecon — Nextflow pipeline for viral genome reconstruction and analysis from sequencing data. Supports Illumina and Oxford Nanopore reads for SARS-CoV-2, influenza, and other viral genomes

2 shared topics • 2 shared operations

Use when working with the Ag100Pest Initiative Snakemake workflows for de novo reference genome assembly and annotation of agricultural pest arthropods. Covers HiFi long-read assembly with hifiasm, Hi

1 shared topic • 3 shared operations