Alternatives and similar repositories for bigbacter-nf:

Users that are interested in bigbacter-nf are comparing it to the libraries listed below

• UPHL-BioNGS / Grandeur
  UPHL's Reference Free Pipeline
  ☆26Updated 2 weeks ago
• MDU-PHL / bohra
  A pipeline for bioinformatics analysis of bacterial genomes
  ☆22Updated 3 weeks ago
• microbinfie-hackathon2020 / CSIS
  Code Safety Inspection Service
  ☆20Updated 2 years ago
• MDU-PHL / emmtyper
  emm Automatic Isolate Labeller
  ☆10Updated last month
• rrwick / Verticall
  Recombination-free trees
  ☆58Updated 3 weeks ago
• tseemann / cgmlst-dists
  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
  ☆27Updated last year
• aldertzomer / RFPlasmid
  Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf
  ☆48Updated last year
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆59Updated last month
• UPHL-BioNGS / Donut_Falls
  Basic workflow for nanopore sequencing data
  ☆16Updated this week
• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆39Updated 5 years ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆37Updated 2 weeks ago
• CFSAN-Biostatistics / C-WAP
  SC2 variant detection and composition pipeline
  ☆17Updated last year
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 4 years ago
• gtonkinhill / tracs
  Fast pairwise transmission inference from single genome and/or metagenomic data
  ☆21Updated 6 months ago
• quadram-institute-bioscience / socru
  Order and orientation of complete bacterial genomes
  ☆27Updated last year
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆60Updated 2 months ago
• boulund / phaster_scripts
  Small utility script to submit genomes to PHASTER for phage detection
  ☆24Updated 3 years ago
• CDCgov / seqsender
  Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories
  ☆36Updated last week
• phac-nml / rebar
  REcombination BARcode detector.
  ☆13Updated last year
• raufs / skDER
  skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.
  ☆44Updated this week
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆34Updated this week
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆32Updated 4 months ago
• lskatz / lyve-SET
  LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations
  ☆26Updated 7 months ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆50Updated 2 weeks ago
• CFSAN-Biostatistics / shigatyper
  CFSAN Shigella Typing Pipeline
  ☆14Updated last year
• tseemann / scripts
  Miscellaneous Perl scripts from 20 years in microbial bioinformatics
  ☆17Updated 9 months ago
• appliedbinf / el_gato
  ☆10Updated last week
• nickp60 / EzClermont
  Phylotype your strains using Clermont's 2013 method: ezclermont.org
  ☆10Updated 2 years ago
• scwatts / hicap
  in silico typing of the H. influenzae cap locus
  ☆12Updated 9 months ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆41Updated 3 weeks ago