Alternatives and similar repositories for BIGSI

Users that are interested in BIGSI are comparing it to the libraries listed below

• CAMI-challenge / CAMITAX
  CAMITAX: Taxon labels for microbial genomes
  ☆30Updated last year
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆52Updated 5 months ago
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆30Updated this week
• Gardner-BinfLab / deltaBS
  Quantifying the significance of genetic variation using probabilistic profile-based methods.
  ☆19Updated 4 years ago
• EGTortuero / viga
  De novo VIral Genome Annotator
  ☆23Updated last year
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆24Updated 2 years ago
• SwingOlive / kASA
  kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding
  ☆23Updated 2 years ago
• BioSina / Panakeia
  Prokaryotic Pangenome Analysis
  ☆24Updated 3 years ago
• hzi-bifo / Haploflow
  ☆30Updated last year
• althonos / pyfastani
  Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
  ☆22Updated 2 weeks ago
• pirovc / multitax
  Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)
  ☆45Updated 2 months ago
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆38Updated 6 months ago
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆26Updated 3 weeks ago
• nluhmann / BlastFrost
  ☆44Updated 3 years ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆20Updated 7 months ago
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆22Updated 2 years ago
• unipept / FragGeneScanRs
  Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.
  ☆26Updated last month
• karel-brinda / Phylign
  Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
  ☆37Updated last year
• qiyunlab / binarena
  BinaRena: Interactive Visualization and Binning of Metagenomic Contigs
  ☆32Updated last year
• pollardlab / MIDAS
  Metagenomic Intra-Species Diversity Analysis (MIDAS)
  ☆39Updated last year
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 7 years ago
• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆29Updated 2 years ago
• maxgmarin / panqc
  A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses
  ☆19Updated last year
• zjshi / Maast
  Microbial agile accurate SNP Typer
  ☆29Updated last year
• metasnv-tool / metaSNV
  MetaSNV, a metagenomic SNV calling pipeline.
  ☆19Updated 3 years ago
• EnzoAndree / FastMLST
  ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies
  ☆27Updated last month
• gcgreenberg / LexicHash
  A novel method for sequence similarity estimation
  ☆28Updated last year
• zhaoc1 / nanoflow
  Bioinformatics pipeline for nanopore sequencing data
  ☆11Updated 6 years ago
• thackl / proovframe
  frame-shift correction for long-read (meta)genomics
  ☆33Updated last year
• HaploConduct / HaploConduct
  Haplotype-aware genome assembly toolkit
  ☆29Updated 5 years ago