Results for "Synteny Blocks"
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pyScaf orders contigs from genome assemblies utilising several types of in...mode) long reads (NGS-based mode) synteny to the genome of some related...In reference-based mode, pyScaf uses synteny to the genome of closely rela...any redundancy will likely break the synten...2689 days ago
- MCscan is a computer program that can simultaneously scan multiple genomes to identify homologous chromosomal region...n these regions using genes as anchors. This is the toolset for generating the synten...
2687 days ago
Many-Core Engine (MCE) for Perl example
MCE spawns a pool of workers and therefore does not fork a...similar to MCE::Loop, but allows for multiple code blocks to run in parallel with a sli...with MCE::Flow, MCE::Stream can run multiple code blocks in parallel with a slight cha...2646 days ago
- A tool for converting for recovering synteny blocks from multiple alignment (in MAF fromat) This tool is a standalone version of Ragout module [http://fenderglass.github./Ragout]
2539 days ago
Synteny Portal: a web-based application portal for synteny block analysis
...ing, visualizing and browsing synteny blocks. With Synteny Portal, users can easily (i) construct synteny blocks among multiple species by usin...-quality images, (iii) browse synteny blocks with genetic information and...imitations of existing tools. Synteny Portal is freely available a...2533 days ago
MGRA: Breakpoint graphs and ancestral genome reconstructions
...n of ancestor genomes and evolutionary history of extant genomes. It takes as an input a set of genomes represented as sequences of genes (or synteny blocks) and produces such sequences...2471 days ago
- Typically in comparative genomics, we can identify anchors, chain them into syntenic blocks and interpret these blocks as derived from a common desc...enomes in particular), we have large number of blocks that are not orthologous, but...
2466 days ago
orthodotter: Synteny plots (oxford grid)
orthodotter -h -------------------------------------------------------------------------------- orthodotter - Plot orthologous genes on an oxford grid. -f <...2456 days ago
- Synteny Imaging tool (Synima) written in Perl, which uses the graphical features of R. Synima takes orthologues comp...BLAST hits or OrthoMCL, and DAGchainer, and outputs an overview of genome-wide synten...
2333 days ago
kraken: A universal genomic coordinate translator for comparative genomics
If you planning on conducting a study involving dozens of large genomes, then you do not have to run all pairwise synteny alignments .. simply try kraken: A universal genomic coordinate translator for comparative genomics2336 days ago
