@sanger-pathogens

Pathogen Informatics, Wellcome Sanger Institute

  • Summary of Sanger Pathogen's Repos

    Python 1 Updated Oct 15, 2018
  • Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation

    Java 58 33 GPL-3.0 Updated Oct 15, 2018
  • Perl 1 6 GPL-3.0 Updated Oct 8, 2018
  • Perl module to take in an genomic assembly and produce annoation

    Perl 8 GPL-3.0 Updated Oct 5, 2018
  • Tools for accessing CHADO databases.

    Python 1 1 GPL-3.0 Updated Oct 4, 2018
  • Finds SNP sites from a multi-FASTA alignment file

    C 51 23 Updated Oct 4, 2018
  • Perl 5 14 GPL-3.0 Updated Oct 4, 2018
  • Pipeline for automatic eukaryotic parasite annotation

    Lua 16 17 ISC Updated Oct 3, 2018
  • To build a virtual machine with some Sanger pathogens software installed

    Shell 3 5 GPL-3.0 Updated Oct 3, 2018
  • Munges GFF3 files exported from Chado (http://www.gmod.org/) database to make them suitable for loading into WebApollo.

    Python 1 GPL-3.0 Updated Oct 3, 2018
  • Conda recipes for the sanger-pathogens channel: https://anaconda.org/sanger-pathogens

    GPL-3.0 Updated Sep 28, 2018
  • Perl 2 GPL-3.0 Updated Sep 28, 2018
  • Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

    C 25 22 GPL-2.0 Updated Sep 28, 2018
  • Jupyter Notebook 6 6 GPL-3.0 Updated Sep 26, 2018
  • HTML 1 2 GPL-3.0 Updated Sep 26, 2018
  • A set of tools to analyse the output from TraDIS analyses

    Perl 5 17 GPL-3.0 Updated Sep 20, 2018
  • Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI

    Python 18 11 GPL-3.0 Updated Sep 19, 2018
  • A tool to circularize genome assemblies

    Python 56 19 GPL-3.0 Updated Sep 19, 2018
  • Rapid large-scale prokaryote pan genome analysis

    Perl 75 65 GPL-3.0 Updated Sep 19, 2018
  • Antimicrobial Resistance Identification By Assembly

    Python 49 19 GPL-3.0 Updated Sep 14, 2018
  • de novo virus assembler of Illumina paired reads

    Python 21 11 GPL-3.0 Updated Aug 21, 2018
  • A Python application for exporting organism sequences from a CHADO database to GFF file.

    Python GPL-3.0 Updated Aug 20, 2018
  • R 3 GPL-3.0 Updated Aug 17, 2018
  • Takes a VCF and applies annotations from a GFF using SnpEff

    Python 1 1 GPL-3.0 Updated Aug 16, 2018
  • A spiritual successor to Crawl

    Java 7 8 GPL-3.0 Updated Aug 16, 2018
  • SaffronTree: Reference free rapid phylogenetic tree construction from raw read data

    Python 10 4 GPL-3.0 Updated Aug 13, 2018
  • Assembling the cause of phenotypes and genotypes from NGS data

    Python 15 5 GPL-3.0 Updated Aug 13, 2018
  • Python 2 3 GPL-3.0 Updated Aug 8, 2018
  • Update a pipelines metadata

    Perl 6 13 GPL-3.0 Updated Aug 7, 2018
  • Predict MLST directly from uncorrected long reads

    Python 1 3 GPL-3.0 Updated Aug 7, 2018
  • Most used topics

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