Curator Dashboard

Software assembly pipeline for bacterial genomes. Used for resolving bacterial genome assemblies from short and long sequencing reads. Can assemble Illumina only read sets where it functions as SPAdes-optimiser. Can assembly long read only sets for PacBio or Nanopore where it runs miniasm+Racon pipeline.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software to generate highly accurate single molecule consensus reads.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for identifying regions of common ancestry between genome maps. Used for identification and statistical evaluation of segmental homologies in comparative maps.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software suite of tools for classifying and analyzing sequences homologous to set of reference models of viral genomes or gene families.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool to run as wrapper script for Velvet assembler and to assist with optimising the assembly.Used to search supplied hash value range for optimum, estimates expected coverage and then searches for optimum coverage cutoff. Estimates insert lengths for paired end libraries. Can optimise assemblies by default optimisation condition or by user supplied one. It outputs the results to subdirectory and records all its operations in logfile.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for variant matching problem.Used for robust matching of small variant datasets using flexible scoring schemes

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool as command line program that performs many of the common routines in pattern matching in biological strings. It was originally designed for restriction enzyme analysis and while that still forms core of the program, it has been expanded to fill more roles, sort of 'grep' for DNA.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for automated drawing, visualization and annotation of secondary structure of RNA, designed as companion software for web servers and databases.Allows manual modification and structural annotation of resulting drawing using either interactive point and click approach, within web server or through command-line arguments.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for flexible annotation of genetic variants.Extracts and summarizes attributes from multiple annotation files and integrates annotations within INFO column of the original VCF file.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for detection of E. coli virulence genes. Used to identify viruelnce genes in total or partial sequenced isolates of bacteria. E. coli, Enterococcus, S. aureus and Listeria are available.for detection of E. coli virulence genes.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Open source software interactive, scalable, visualization, animation and analysis tool. Used to generate visualizations, animate them through time, manipulate them with variety of operators and mathematical expressions, and save resulting images and animations for presentations.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software toolkit to improve read mapping by representing genetic variation in reference.Provides succinct encoding of sequences of many genomes.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool as molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting. VMD supports computers running MacOS X, Unix, or Windows, is distributed free of charge, and includes source code.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Portable software library for volume rendering.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Open source software toolkit for medical image conversion.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool as fast and flexible long read alignment with optimal breakpoint detection.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool to assist in recovery and prevention of Repetitive Strain Injury. Monitors keyboard and mouse usage and using this information, it frequently alerts you to take microbreaks, rest breaks and restricts you to your daily computer usage.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool as read simulator for nanopore DRS datasets.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool to filter and slice Nanopore reads which have been basecalled with Albacore.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool as structural variant calling.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth