Curator Dashboard

Software comparative genomics tool to assist biologists in analysing genomic variations that correlate with pathogens, or genomic changes that help microorganisms adapt in different environments. Used for evolutionary and genome rearrangement studies for multiple strains of microorganisms.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for estimation of haplotypes aka phasing for SNP array and high coverage sequencing data. The version 4 is refactored and improved version of SHAPEIT algorithm with multiple key additional features.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Open Source platform to host multiple Shiny applications on single server.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software pipeline for Salmonella serotype determination from raw sequencing reads or genome assemblies.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for alignment to variation graph inducer.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software application to expose file format conversion in BioPython in convenient way. Imagemagick like frontend to Biopython SeqIO.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool to filter SAM file for soft and hard clipped alignments

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software toolbox provides set of basic functions allowing SBML models to be used in both MATLAB and Octave.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tools for working with SAM/BAM data

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Ensemble of HMM methods.Repository includes code for SEPP, TIPP, UPP, HIPPI. Methods use ensembles of Hidden Markov Models in different ways, each focusing on different problem.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool that implements novel, alignment free algorithm for estimation of isoform abundances directly from set of reference sequences and RNA-seq reads.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for finding orthologs between one set of sequences and another. This is particularly useful in genome and transcriptome annotation.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software package for assigning confidence scores to protein-protein interactions based on quantitative proteomics data in AP-MS experiments.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Ruby library for handling GFA files.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tools and libraries for bioinformatics and molecular biology, for the Ruby programming language. BioRuby has components for sequence analysis, pathway analysis, protein modelling and phylogenetic analysis; it supports many widely used data formats and provides easy access to databases, external programs and public web services, including BLAST, KEGG, GenBank, MEDLINE and GO.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

GUI tool to run circos

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool for rapid and accurate taxonomic classification of short paired-end sequence reads from the 16S ribosomal RNA gene.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software R package as collection of character string/text/natural language processing tools for pattern searching, random string generation, case mapping, string transliteration, concatenation, sorting, padding, wrapping, Unicode normalisation, date time formatting and parsing.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software C program that performs single SNP, case control association testing in samples with partially or completely unknown population and pedigree structure.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool as genetic distance plotting for recombination events analysis.

• Resource
• SciCrunch
• 3 years ago - submitted by Edyta Vieth