Tags: Bioinformatics, Analysis, NGS, Scaffolding, Scarpa
2841 days ago
Tags: Bioinformatics, Analysis, NGS, Scaffolding, WiseScaffolder
2841 days ago
Tags: Bioinformatics, Chromosome, Genome, NGS, Align, Compare, Similarity, Scaffolding
2682 days ago
Tags: Bioinformatics, SSPACE, Scaffolding, NGS, Genome, Contig
2545 days ago
CLA: Contig-Layout-Authenticator
To improve upon the shortcomings associated with the construction of draft genomes with Illumina paired-end sequencing, we developed Contig-Layout-Authenticator (CLA). The CLA pipeline can scaffold reference-sorted contigs based on paired reads, resulting in better assembled genomes. Moreover, CL...Tags: Bioinformatics, Analysis, Scaffolding, CLA, Contig
2545 days ago
npScarf: Scaffolding and Completing Assemblies in Real-time Fashion
npScarf (jsa.np.npscarf) is a program that scaffolds and completes draft genomes assemblies in real-time with Oxford Nanopore sequencing. The pipeline can run on a computing cluster as well as on a laptop computer for microbial datasets. It also facilitates the real-time analysis of position...Tags: npScarf, Scaffolding, Completing, Assemblies, PacBio
2527 days ago
GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies.
GRASS (GeneRic ASsembly Scaffolder)-a novel algorithm for scaffolding second-generation sequencing assemblies capable of using diverse information sources. GRASS offers a mixed-integer programming formulation of the contig scaffolding problem, which combines contig order, distance and orientation...Tags: GRASS, Generic, Algorithm, Scaffolding, NGS, Sequencing, Assemblies
2527 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.Tags: SCUBAT, Scaffolding, Contigs, Blat, Transcripts
2233 days ago
Tags: SSAPCE, LongREads, SSPACE-Longreads, Scaffolding, error, getopts, perl, genome
2139 days ago