wwood / singlem

Related projects ⓘ

Alternatives and complementary repositories for singlem

• snayfach / MGV
  Supporting code for uncultivated gut virus manuscript
  ☆66Updated last year
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆107Updated last week
• rpetit3 / dragonflye
  Assemble bacterial isolate genomes from Nanopore reads
  ☆116Updated 6 months ago
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆110Updated last year
• lskatz / mashtree
  Create a tree using Mash distances
  ☆156Updated last year
• ncbi / SKESA
  SKESA assembler
  ☆112Updated last month
• MaestSi / MetONTIIME
  A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework
  ☆78Updated 5 months ago
• klebgenomics / Kleborate
  ☆116Updated this week
• MrOlm / inStrain
  Bioinformatics program inStrain
  ☆147Updated 6 months ago
• chklovski / CheckM2
  Assessing the quality of metagenome-derived genome bins using machine learning
  ☆173Updated 5 months ago
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆110Updated last week
• biobakery / phylophlan
  Precise phylogenetic analysis of microbial isolates and genomes from metagenomes
  ☆128Updated this week
• cmks / DAS_Tool
  DAS Tool
  ☆140Updated 6 months ago
• EBI-Metagenomics / emg-viral-pipeline
  VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
  ☆128Updated this week
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆97Updated 3 years ago
• marbl / parsnp
  Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…
  ☆129Updated this week
• AdmiralenOla / Scoary
  Pan-genome wide association studies
  ☆150Updated 5 months ago
• phac-nml / mob-suite
  MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
  ☆124Updated last month
• nmquijada / tormes
  Making whole bacterial genome sequencing data analysis easy
  ☆99Updated 2 weeks ago
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆192Updated 3 months ago
• bluenote-1577 / skani
  Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.
  ☆170Updated 4 months ago
• gbouras13 / pharokka
  fast phage annotation program
  ☆148Updated this week
• HRGV / phyloFlash
  phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
  ☆77Updated last year
• phac-nml / staramr
  Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
  ☆117Updated 4 months ago
• fwhelan / coinfinder
  A tool for the identification of coincident (associating and dissociating) genes in pangenomes.
  ☆97Updated last year
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆191Updated 2 weeks ago
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆91Updated 2 years ago
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆189Updated last year
• rrwick / Polypolish
  a short-read polishing tool for long-read assemblies
  ☆145Updated 5 months ago
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆134Updated 2 weeks ago