Results for "scaffold"
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Function WiseScaffolder is a stand-alone semi-automatic application for genome scaffolding of pre-assembled contigs u...ta. It also produces editable scaffold maps, allowing either to buil...for the manual improvement of scaffolds scaffold constitutes the cen...2865 days ago
- ...codons to compute the substitution rates (Ka, Ks and Ka/Ks) between a well-annotated genome and a non-annotated genome or even a poorly assembled scaffold dataset. It is especially use...
2818 days ago
- LINKS is a genomics application for scaffolding genome assemblies with long reads, such as those produced by Oxford Nanopore Technologies Ltd. It can be used to scaffold high-quality draft genome ass...
2751 days ago
ConPADE: Genome Assembly Ploidy Estimation from Next-Generation Sequencing Data
ConPADE (Contig Ploidy and Allele Dosage Estimation), a probabilistic method that estimates the ploidy of any given contig/scaffold based on its allele proportions. In the process, the...2639 days ago
CLA: Contig-Layout-Authenticator
...out-Authenticator (CLA). The CLA pipeline can scaffold reference-sorted contigs base...acterial genome datasets for the ordering and scaffolding of large repetitive contig...single command line input to generate ordered scaffolds. Script https://source...2569 days ago
TULIP - The Uncorrected Long read Itegration Pipeline
...implementations are likely to follow. Tulipseed takes as input alignments files of long reads to sparse short seeds, and outputs a graph and scaffold structures. Tulipbulb adds lo...2367 days ago
CAMSA :: a tool for Comparative Analysis and Merging of Scaffold Assemblies
...rative Analysis and Merging of Scaffold Assemblies, distributed.... Main features: works with any number of scaffold assemblies in de-novo non-pro...ssembly points) constructs a merged combined scaffold assembly provides an interac...2332 days ago
Genome assembly stats plotting
...nbsp;de novo genome assembly can be summarised b y a number of metrics, including: Overall assembly length Number of scaffolds/contigs Length of longest scaffold/contig Scaffold/contig N50 a...2270 days ago
SCUBAT: Scaffolding Contigs Using Blat And Transcripts
SCUBAT (Scaffolding Contigs Using BLAT And Transcripts) uses any set of transcripts to identify cases where a transcript is split over multiple genome fragments and attempts to use this information to scaffold the genome.2257 days ago
P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
P_RNA_scaffolder, a fast and accurate tool using paired-end RNA-sequencing reads to scaffold genomes. This tool aims to im...non-coding genes. After this tool was applied to scaffolding human contigs, the structu...2166 days ago
