Alternatives and similar repositories for Amira

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

• lskatz / pdtk
  NCBI Pathogen Detection Portal toolkit
  ☆11Updated 2 years ago
• mbhall88 / classification_benchmark
  Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification
  ☆12Updated last year
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆20Updated 8 months ago
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 7 years ago
• AfZheng126 / MORA
  MetagenOmic read Re-Assigner and abundance quantifier
  ☆18Updated 8 months ago
• CFSAN-Biostatistics / shigatyper
  CFSAN Shigella Typing Pipeline
  ☆15Updated 2 years ago
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆61Updated last week
• erinyoung / roundabout
  Finding regions of similarity between plasmids
  ☆16Updated 2 years ago
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆32Updated last month
• appliedbinf / el_gato
  ☆10Updated 5 months ago
• LaborBerlin / score-assemblies
  Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).
  ☆26Updated last year
• stjacqrm / centroid
  tool to determine optimal refrerence genome given a set of fasta files
  ☆15Updated 2 years ago
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆31Updated last year
• katholt / AMRrules
  Organism-specific interpretation of AMR genotypes
  ☆14Updated last year
• jonas-fuchs / virHEAT
  Visualize microbial evolution at the SNP level!
  ☆15Updated last month
• mbhall88 / tbpore
  Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data
  ☆12Updated last year
• Dmitry-Antipov / viralFlye
  viralFlye pipeline
  ☆18Updated last year
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆22Updated 2 years ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆54Updated 5 months ago
• centre-pathogen-genomics / snippy-ng
  ☆22Updated 2 weeks ago
• kangxiongbin / StrainXpress
  StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble high…
  ☆13Updated last year
• tongzhouxu / mashpit
  Sketch-based surveillance platform
  ☆13Updated 9 months ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆25Updated 3 weeks ago
• martinghunt / ziplign
  Simple-to-use interactive comparison of two bacterial genomes
  ☆16Updated 3 weeks ago
• gtonkinhill / tracs
  Fast pairwise transmission inference from single genome and/or metagenomic data
  ☆21Updated 2 months ago
• iqbal-lab-org / pling
  Plasmid analysis using rearrangement distances
  ☆45Updated last month
• PROBIC / mGEMS
  mGEMS Genomic epidemiology with mixed samples
  ☆15Updated last year
• rrwick / Are-reads-required
  ☆10Updated 3 months ago
• esteinig / sketchy
  Genomic neighbor typing of bacterial pathogens using MinHash
  ☆43Updated 2 years ago
• ubinfie / ubinfie.github.io
  µbinfie blog
  ☆18Updated 2 months ago