Results for "Scaffolds"
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Alignment of closely related whole genomes/scaffolds
With the relative ease and low cost of current generation sequencing technologies has led to a dramatic increase in the number of sequenced genomes for species across th...3009 days ago
RACA: Reference-Assisted Chromosome Assembly
Rreference-Assisted Chromosome Assembly (RACA), an algorithm to reliably order and orient sequence scaffolds generated by NGS and assemblers into longer chromosomal fragments using com...2941 days ago
REAPR: a universal tool for genome assembly evaluation
...eads, without the use of a reference genome for comparison. It can be used in any stage of an assembly pipeline to automatically break incorrect scaffolds and flag other errors in an a...2940 days ago
- ...affold maps, allowing either to build gapped scaffolds or usable as a common thread for the manual improvement of scaffolds. Description WiseScaf...luable outputs for the manual improvement of scaffolds scaffold constitutes the cent...
2843 days ago
- ...many pieces of contiguous sequence (contigs) arranged in thousands of scaffolds instead of small numbers of c...iles to visualize transcript evidence that suggests adjacency between scaffolds and contigs. Software requir...
2801 days ago
OPERA : Optimal Paired-End Read Assembler
...end/mate-pair/long reads to order and orient the intermediate contigs/scaffolds assembled in a genome assembl...an exact algorithm that is guaranteed to minimize the discordance of scaffolds with the information provided...2785 days ago
- ...ng tool based on Maximum-Weight Matching able to produce high-quality scaffolds from NGS data (reads and cont....sam files produced after mapping reads to contigs and the resulting scaffolds file `scaffolds.fa` fasta fil...
2690 days ago
GARM:Genome Assembly, Reconciliation and Merging
...untu, Fedora and BioLinux distributions. The method merges contigs or scaffolds from different assemblers using the same or different sequencing technologies. When scaffolds are provided, a process of fi...2684 days ago
- ...Reduce your assembly before (fasta2homozygous.py) as any redundancy will likely break the synteny. pyScaf works better with contigs than scaffolds, as scaffolds are often affected by mis-ass...
2684 days ago
- ...order, distance and orientation of your contigs and combine them into scaffolds. Currently we offer this as a...d NGS paired-read data (Illumina/454/Solid FASTA or FASTQ). The final scaffolds are provided in FASTA format....
2547 days ago
