9 skills found
shenwei356 / LexicMapLexicMap: efficient sequence alignment against millions of prokaryotic genomes
kjolley / BIGSdbBacterial Isolate Genome Sequence Database (BIGSdb): A platform for gene-by-gene bacterial population annotation and analysis.
jordanlab / StringMLSTFast k-mer based tool for multi locus sequence typing (MLST)
medvir / VirMetSet of tools for viral metagenomics.
TIBHannover / BacDiveRInofficial R client for the DSMZ's Bacterial Diversity Metadatabase (former contact: @katrinleinweber). https://api.bacdive.dsmz.de/client_examples seems to be the official alternatives.
ryjohnson09 / Bacteria Genome PullDownload latest bacterial sequencing assembly files from NCBI database (RefSeq or Genbank)
karla-vasco / Metagenomic ResistomeThis repository contains all the scripts used for metagenomic processing and resistome. First, metagenome sequences from cattle feces were analyzed with AmrPlusPlus for sequence processing and ARG annotations with the MEGARES 2.0 database. Then, host-removed metagenomes were used for DNA assembly and further annotations with DeepARG, CARD, and HMD-ARG which are protein databases to identify antimicrobial determinants. Finally, ARG-host identification was carried out by identifying taxa associated with ARG-carrying contigs and co-occurrence networks between bacterial taxa and ARGs. Statistical analyses were used to identify assembler performance and resistome composition.
nickloman / XbaseXBASE - a database and web framework for bacterial genomics and next-generation sequencing
B-UMMI / UBdbs Cataloguseful bacterial databases catalog
