Results for "Genomes"
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SATSUMA : Highly sensitive whole-genome synteny alignments.
Satsuma is a whole-genome synteny alignment program. It takes two genomes, computes alignments, and then kee...n on multi-core architectures. The run-time for aligning two bird-size genomes (~1.2 Gb) is around two days...2908 days ago
MOSAIK: A Hash-Based Algorithm for Accurate Next-Generation Sequencing Short-Read Mapping
...SAIK was the only aligner to provide consistent mappings for all the generated data (sequencing technologies, low-coverage and exome) in the 1000 Genomes Project. To provide highly ac...2900 days ago
CNIDARIA: fast, reference-free phylogenomic clustering
...tions. Reference-free methods analyse unprocessed sequencing data without relying on prior knowledge, but these do not scale to arbitrarily large genomes and arbitrarily large phyloge...2874 days ago
- Reads simulator Wgsim is a small tool for simulating sequence reads from a reference genome. It is able to simulate diploid genomes with SNPs and insertion/deletion (INDEL) polymorph...
2867 days ago
- ...eads where the base qualities are low in all or most reads before 60nt. A5-miseq assumes it is assembling homozygous haploid genomes. Use a different assembler for metagenomes and heterozygous diploid or p...
2811 days ago
- ...otein sequences. By default, Kaiju uses either the available complete genomes from NCBI RefSeq or the micro...mple, only 10 GB RAM with a protein database comprising 4821 microbial genomes. Kaiju can also be used for q...
2863 days ago
Bioinformatics tools and software
...p;UCHIME >Chimeric sequence detection. PILER >De novo genome repeat finder. PILER-CR >Detection of CRISPR repeats in bacterial genomes. QSCORE >Compare two...2855 days ago
- ...oks both across and within a set of sequenced genomes to detect variation. The meth...d and single-end reads. A minimum of 20 to 30 genomes are required to get acceptabl...ation, such as a set of genomes from the 1000 Genomes Project. The background...
2792 days ago
- ...among several formats. The application is especially optimized and adapted for the creation of high-quality, detailed circular maps of organellar genomes like the plastid genome (plas...
2813 days ago
- ...tween a well-annotated genome and a non-annotated genome or even a poorly assembled scaffold dataset. It is especially useful for newly sequenced genomes that have not been well annot...
2800 days ago
