1847 days ago
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
Alonge M, Soyk S, Ramakrishnan S, Wang X, Goodwin S, Sedlazeck FJ, Lippman ZB, Schatz MC: Fast and accurate reference-guided scaffolding of draft genomes. bioR...1838 days ago
Snakemake workflow: dna-seq-gatk-variant-calling
This Snakemake pipeline implements the GATK best-practices workflow for calling small genomic variants.1739 days ago
jackalope: A swift, versatile phylogenomic and high-throughput sequencing simulator
jackalope simply and efficiently simulates (i) variants from reference genomes and (ii) reads from both Illum...read reference genomes from FASTA files or simulate new ones. Genomic variants can be simulated using summar...1739 days ago
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
Alonge M, Soyk S, Ramakrishnan S, Wang X, Goodwin S, Sedlazeck FJ, Lippman ZB, Schatz MC: Fast and accurate reference-guided scaffolding of draft genomes. bioR...1646 days ago
simuG: a general-purpose genome simulator
...d genomes with pre-defined and random genomic variants can be very useful for benchm...l for simulating the full-spectrum of genomic variants (single nucleotide polymorphisms, Insertions/Deletions, copy number variants, inversions and translocation...1614 days ago
1590 days ago
StringTie Transcript assembly and quantification for RNA-Seq
...algorithm as well as an optional de novo assembly step to assemble and quantitate full-length transcripts representing multiple splice variants for each gene locus. Its inpu...1420 days ago
1555 days ago
Kevler: Reference-free variant discovery in large eukaryotic genomes
...ware for predicting de novo genetic variants without mapping reads to a re...bundance based method calls single nucleotide variants (SNVs), multinucleotide varia...on/deletion variants (indels), and structural variants (SVs) simultaneously with a s...1553 days ago