Alternatives and similar repositories for pling

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

• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆50Updated 3 years ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆52Updated 5 months ago
• gbouras13 / pypolca
  Standalone Python re-implementation of the POLCA polisher from MaSuRCA
  ☆39Updated 3 weeks ago
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆60Updated 2 weeks ago
• bluenote-1577 / myloasm
  A new high-resolution long-read metagenome assembler for even noisy reads
  ☆93Updated 3 weeks ago
• rrwick / Verticall
  Recombination-free trees
  ☆60Updated 2 weeks ago
• gtonkinhill / tracs
  Fast pairwise transmission inference from single genome and/or metagenomic data
  ☆21Updated last month
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆61Updated 3 months ago
• raufs / skDER
  skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.
  ☆48Updated last week
• althonos / pyorthoani
  A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
  ☆30Updated last month
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆58Updated last year
• karel-brinda / MiniPhy
  Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]
  ☆41Updated 5 months ago
• zjshi / Maast
  Microbial agile accurate SNP Typer
  ☆29Updated last year
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆43Updated 3 weeks ago
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆31Updated last year
• MDU-PHL / bohra
  A pipeline for bioinformatics analysis of bacterial genomes
  ☆30Updated this week
• cruizperez / FastAAI
  ☆24Updated 7 months ago
• RabbitBio / RabbitTClust
  RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches
  ☆49Updated last month
• Dmitry-Antipov / viralFlye
  viralFlye pipeline
  ☆18Updated last year
• MrTomRod / assembly-curator
  Quickly generate consensus assemblies for bacterial genomes
  ☆14Updated this week
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆35Updated 4 months ago
• linsalrob / sphae
  Phage annotations and predictions. A spae is a prediction or foretelling. We'll foretell you what your phage is doing!
  ☆38Updated this week
• andrewjpage / krocus
  Predict MLST directly from uncorrected long reads
  ☆27Updated 3 years ago
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆31Updated 2 weeks ago
• OLC-Bioinformatics / ConFindr
  Intra-species bacterial contamination detection
  ☆25Updated 7 months ago
• Sudaraka88 / LDWeaver
  Genomewide Epistasis Analysis on Bacteria
  ☆14Updated 4 months ago
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆38Updated 3 months ago
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆43Updated last month
• ChrispinChaguza / RCandy
  RCandy: an R package for visualising homologous recombination events in bacterial genomes
  ☆25Updated 3 years ago
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆50Updated 4 years ago