Results for "MUltiple"

Tags

  • mafTools

    Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.

    Tags: Bioinformatics, MAF, mafTools, Alignment, Multiple

    2868 days ago

  • maf2synteny

    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]

    Tags: Tool, Conversion, Recover, Synteny, Blocks, Multiple, Alignment, MAF, Format, maf2synteny

    2506 days ago

  • SIMA C++ Implementation: Simultaneous Multiple Alignment of LC/MS Peak Lists

    This is the c++ implementation for SIMA - Simultaneous Multiple Alignment of LC/MS Peak Lists. The package contains C++ source code as well as two binary files. The latter were tested under various operating systems, including Windows XP SP3 32bit, Windows Vista 32bit, Windows 2008 Server, Window...

    Tags: SIMA, C++, Simultaneous, Multiple, Alignment, LC/MS, Peak, Lists

    2317 days ago

  • MACSE: Multiple Alignment of Coding SEquences Accounting for Frameshifts and Stop Codons

    MACSE aligns coding NT sequences with respect to their AA translation while allowing NT sequences to contain multiple frameshifts and/or stop codons. MACSE is hence the first automatic solution to align protein-coding gene datasets containing non-functional sequences (pseudogenes) without disrupt...

    Tags: MACSE, Multiple, Alignment, Coding, SEquences, Accounting, Frameshifts, Stop, Codons

    1865 days ago

  • Mercator: Multiple Whole-Genome Orthology Map Construction

    Whole-genome homology maps attempt to identify the evolutionary relationships between and within multiple genomes. The term "syntenic" is often used to describe regions of multiple genomes that are believed to have evolved from the same region in an ancestral genome. However, it has been pointed ...

    Tags: Mercator, Multiple, Whole-Genome, Orthology, Map, Construction, orthologous, homologous, paralogous, Synteny, ancetral

    1409 days ago

  • Mugsy: multiple whole genome alignment tool

    Mugsy is a multiple whole genome aligner. Mugsy uses Nucmer for pairwise alignment, a custom graph based segmentation procedure for identifying collinear regions, and the segment-based progressive multiple alignment strategy from Seqan::TCoffee. Mugsy accepts draft genomes in the form of multi-FA...

    Tags: Mugsy, multiple, whole, genome, alignment, tool

    2302 days ago

  • Multi-CAR: a tool of contig scaffolding using multiple references

    we design a simple heuristic method to further revise our single reference-based scaffolding tool CAR into a new one called Multi-CAR such that it can utilize multiple complete genomes of related organisms as references to more accurately order and orient the contigs of a draft genome. In practic...

    Tags: Multi-CAR, tool, contig, scaffolding, multiple, references

    2214 days ago

  • MIX: Combining multiple assemblies from NGS data

    Mix is a tool that combines two or more draft assemblies, without relying on a reference genome and has the goal to reduce contig fragmentation and thus speed-up genome finishing. The proposed algorithm builds an extension graph where vertices represent extremities of contigs and edges represent ...

    Tags: MIX, Combining, multiple, assemblies, NGS, data, Tools

    2151 days ago

  • GenomeMapper: Simultaneous alignment of short reads against multiple genomes

    GenomeMapper is a short read mapping tool designed for accurate read alignments. It quickly aligns millions of reads either with ungapped or gapped alignments. It can be used to align against multiple genomes simulanteously or against a single reference. If you are unsure which one is the appropr...

    Tags: GenomeMapper, Simultaneous, alignment, short, reads, multiple, genomes

    2134 days ago

  • GRSR: a tool for deriving genome rearrangement scenarios from multiple unichromosomal genome sequences

    GRSR is a Tool for Deriving Genome Rearrangement Scenarios for Multiple Uni-chromosomal Genomes. This tool will do the following steps: Step 1. Run mugsy to get multiple sequence alignment results. Step 2 & 3. Extraction of the Coordinates of Core Blocks, Construction of Synteny Blocks an...

    Tags: GRSR, tool, genome, rearrangement, scenarios, multiple, unichromosomal, genome, sequences

    2008 days ago