Alternatives and similar repositories for asap

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

• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 4 years ago
• rrwick / Metagenomics-Index-Correction
  ☆83Updated 2 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆45Updated 5 years ago
• SamStudio8 / reticulatus
  A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads
  ☆68Updated 3 years ago
• vrmarcelino / CCMetagen
  Microbiome classification pipeline
  ☆65Updated 4 months ago
• BU-ISCIII / plasmidID
  PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…
  ☆41Updated 4 years ago
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆76Updated 3 years ago
• katholt / RedDog
  ☆37Updated 3 years ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆56Updated last year
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆76Updated last week
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆100Updated 3 years ago
• FOI-Bioinformatics / flextaxd
  FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…
  ☆67Updated 6 months ago
• nmquijada / tormes
  Making whole bacterial genome sequencing data analysis easy
  ☆110Updated 4 months ago
• SegataLab / panphlan
  PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples
  ☆44Updated last year
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆80Updated last year
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆34Updated last year
• DiltheyLab / MetaMaps
  Long-read metagenomic analysis
  ☆105Updated last year
• bacpop / PopPUNK
  PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
  ☆100Updated last month
• shenwei356 / gtdb-taxdump
  GTDB taxonomy taxdump files with trackable TaxIds
  ☆55Updated 4 months ago
• pirovc / ganon
  ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…
  ☆102Updated 5 months ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆50Updated 7 months ago
• fmalmeida / bacannot
  Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.
  ☆103Updated 5 months ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆65Updated 3 years ago
• linsalrob / PhiSpy
  Prediction of prophages from bacterial genomes
  ☆79Updated 3 months ago
• fanglab / nanodisco
  nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…
  ☆70Updated 3 years ago
• jhawkey / IS_mapper
  IS mapping software
  ☆56Updated 3 years ago
• avierstr / amplicon_sorter
  Sorts amplicons from Nanopore sequencing data based on similarity
  ☆39Updated 3 months ago
• replikation / What_the_Phage
  WtP: Phage identification via nextflow and docker or singularity
  ☆105Updated last week
• bobeobibo / phigaro
  Phigaro is a scalable command-line tool for predicting phages and prophages
  ☆52Updated last year
• bvalot / pyMLST
  whole genome MLST analysis
  ☆47Updated 3 months ago