WhatsHap: fast and accurate read-based phasing
WhatsHap is a software for phasing genomic variants using DNA sequencing reads, also called read-based phasing or haplotype assembly. It is especially suitable for long reads,...2227 days ago
ASplice: a scalable and memory-efficient algorithm for de novo transcriptome assembly
With increased availability of de novo assembly algorithms, it is feasible to study e...computing cluster with moderate amount of physical memory. Availability – A software program that implements the a...2191 days ago
NAViGaTOR: Network Analysis, Visualization and Graphing Toronto
NAViGaTOR – Network Analysis, Visualization, & Graphing TORonto is a software system for scaleable visualizing a...2191 days ago
transrate: Understanding your transcriptome assembly
Transrate is software for de-novo transcriptome assembly quality analysis. It examines your assembly in detail and compares it to experimental evidence such as the s...2181 days ago
Nanopolis: polish a genome assembly
Software package for signal-level analysis of Oxford Nanopore sequencing data. Nanopolish can calculate an improved consensus sequence for a draft genome assembly, detec...2168 days ago
ARC: pipeline which facilitates iterative, reference guided de novo assemblies
ARC is a pipeline which facilitates iterative, reference guided de novo ass...ducing/removing reference bias as compared to mapping based approaches. The software is designed to work in situat...2168 days ago
2141 days ago
P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
P_RNA_scaffolder is a novel scaffolding tool using Pair-end RNA-seq to scaffold genome fragments. The method is suitable for most genomes. The program could utilize Illu...2125 days ago
funannotate: Eukaryotic Genome Annotation Pipeline
Funannotate is a genome prediction, annotation, and comparison software package. It was originally written to annotate fungal genomes...over time to accomodate larger genomes. The impetus for this software package was to be able to acc...2113 days ago
EvidentialGene: tr2aacds, mRNA Transcript Assembly Software
Quality assessment of this mRNA Transcript Assembly Software is described in EvidentialGene_quality. Too many transcript assemblies is much better than too few. It allows one then to apply...2101 days ago