Alternatives and similar repositories for plasmIDent:

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

• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆23Updated 10 months ago
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 6 years ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆21Updated 3 weeks ago
• MDU-PHL / bohra
  A pipeline for bioinformatics analysis of bacterial genomes
  ☆19Updated 7 months ago
• tseemann / seeka
  Get microbial sequence data easier and faster
  ☆28Updated 5 years ago
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆48Updated 2 months ago
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆36Updated this week
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆24Updated last year
• beardymcjohnface / Koverage
  Quickly get coverage statistics given reads and an assembly
  ☆14Updated 9 months ago
• rrwick / Compare-annotations
  A script for comparing old vs new versions of genome annotations
  ☆20Updated last year
• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 5 years ago
• katholt / reddog-nf
  pipeline for read mapping, snp calling and annotation for bacterial genomes
  ☆12Updated 11 months ago
• dhelekal / CaveDive
  ☆17Updated 8 months ago
• bacpop / pp-sketchlib
  Library of sketching functions used by PopPUNK
  ☆30Updated last month
• rpetit3 / pasty
  A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates
  ☆12Updated 5 months ago
• iqbal-lab-org / varifier
  Variant call verification
  ☆16Updated last month
• yosuken / ccfind
  ccfind - circular complete genome finder with clues of terminal redundancy
  ☆15Updated 4 years ago
• iqbal-lab-org / pling
  Plasmid analysis using rearrangement distances
  ☆31Updated 3 months ago
• piyuranjan / SNIKT
  Sequence-independent identification and removal of adapters/systemic contamination in shotgun sequencing data. https://doi.org/10.1093/bi…
  ☆16Updated last year
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆25Updated 2 years ago
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆27Updated this week
• jonas-fuchs / virHEAT
  Visualize microbial evolution at the SNP level!
  ☆14Updated 3 months ago
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆30Updated last year
• NickJD / ORForise
  Comparison pipeline for Prokaryote Protein Coding Gene Predictors
  ☆22Updated 10 months ago
• aweimann / traitar
  ☆22Updated last year
• LaborBerlin / score-assemblies
  Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).
  ☆24Updated 10 months ago
• sanger-pathogens / seroba
  k-mer based Pipeline to identify the Serotype from Illumina NGS reads
  ☆21Updated last year
• jfass / apc
  (a) (p)erfect (c)ircle? ... tests DNA sequences for overlapping ends, then trims and rejoins, and aligns reads to test the join
  ☆11Updated 3 years ago
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆30Updated 3 weeks ago
• kwongj / maskrc-svg
  Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG
  ☆20Updated 6 years ago