Alternatives and similar repositories for ptolemy

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

• OLC-Bioinformatics / ConFindr
  Intra-species bacterial contamination detection
  ☆25Updated this week
• bacpop / unitig-counter
  Uses cDBG to count unitigs in bacterial populations
  ☆16Updated 2 years ago
• dhelekal / CaveDive
  ☆18Updated last year
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆25Updated 4 months ago
• LANL-Bioinformatics / PhaME
  Given a reference, PhaME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to constr…
  ☆33Updated 2 years ago
• aesheppard / TETyper
  transposable element typing pipeline
  ☆19Updated last year
• sgearle / bugwas
  Locus and lineage tests for bacterial GWAS
  ☆28Updated 8 years ago
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆24Updated 3 years ago
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 7 years ago
• HaploConduct / HaploConduct
  Haplotype-aware genome assembly toolkit
  ☆30Updated 6 years ago
• imgag / plasmIDent
  ☆15Updated last year
• esteinig / sketchy
  Genomic neighbor typing of bacterial pathogens using MinHash
  ☆42Updated 3 years ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• kwongj / roary2fripan
  Formats Roary output for viewing in FriPan
  ☆11Updated 7 years ago
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆35Updated 6 years ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆21Updated 5 years ago
• KThorellGroup / BACTpipe
  BACTpipe: An assembly and annotation pipeline for bacterial genomics
  ☆20Updated last year
• svm-zhang / AGOUTI
  Annotated Genome Optimization Using Transcriptome Information
  ☆20Updated 5 years ago
• farhat-lab / fast-lineage-caller
  ☆14Updated 4 years ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆20Updated 2 weeks ago
• uio-cels / NucDiff
  In-depth characterization and annotation of differences between two sets of DNA sequences
  ☆63Updated 5 years ago
• tseemann / scripts
  Miscellaneous Perl scripts from 20 years in microbial bioinformatics
  ☆18Updated last year
• drpowell / FriPan
  Interactive, web tool for exploring pan-genome of bacterial strains
  ☆48Updated 3 weeks ago
• hzi-bifo / Haploflow
  ☆30Updated 2 years ago
• danny-wilson / genomegaMap
  Within-species genome-wide dN/dS estimation from very many genomes
  ☆23Updated 5 years ago
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆25Updated 2 years ago
• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 6 years ago
• santeripuranen / SpydrPick
  SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.
  ☆15Updated 3 years ago
• pierrepeterlongo / back_to_sequences
  ☆46Updated 2 months ago
• tseemann / seeka
  Get microbial sequence data easier and faster
  ☆28Updated 6 years ago