Alternatives and similar repositories for MAGpy:

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

• jhawkey / IS_mapper
  IS mapping software
  ☆53Updated 3 years ago
• snayfach / MicrobeCensus
  MicrobeCensus estimates the average genome size of microbial communities from metagenomic data
  ☆44Updated 4 years ago
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆48Updated 2 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆53Updated last year
• snayfach / MAGpurify
  Improvement of metagenome-assembled genomes
  ☆50Updated 5 years ago
• arumugamlab / msamtools
  Metagenomics-related extended functionalities to samtools
  ☆21Updated last year
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆58Updated last year
• allind / EukDetect
  ☆50Updated 11 months ago
• leylabmpi / Struo
  Ley Lab MetaGenome Profiler DataBase generator
  ☆49Updated 2 years ago
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆58Updated last month
• SegataLab / panphlan
  PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples
  ☆45Updated last year
• arumugamlab / MIntO
  Pipeline for Reproducible and Scalable Integration of Metagenomic and Metatranscriptomic Data
  ☆14Updated last month
• Serka-M / mmlong2
  Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes
  ☆45Updated last month
• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆71Updated 5 years ago
• metagenopolis / CroCoDeEL
  CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data
  ☆23Updated this week
• DeniRibicic / q2ONT
  Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2
  ☆29Updated 5 years ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆63Updated 2 years ago
• LomanLab / EBAME18
  Long read metagenomics practical at EBAME18
  ☆18Updated 6 years ago
• hoelzer-lab / ribap
  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
  ☆27Updated 5 months ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆59Updated last month
• rrwick / Metagenomics-Index-Correction
  ☆81Updated last year
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆33Updated last month
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆71Updated last year
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆76Updated 3 years ago
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆63Updated 5 months ago
• shenwei356 / gtdb-taxdump
  GTDB taxonomy taxdump files with trackable TaxIds
  ☆52Updated 11 months ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆27Updated 3 months ago
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 4 years ago
• hsgweon / pipits
  Automated pipeline for analyses of fungal ITS from the Illumina
  ☆31Updated 7 months ago
• aldertzomer / RFPlasmid
  Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf
  ☆48Updated 11 months ago