Alternatives and similar repositories for CoverM

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

• MrOlm / drep
  Rapid comparison and dereplication of genomes
  ☆326Updated 2 months ago
• tseemann / barrnap
  Bacterial ribosomal RNA predictor
  ☆279Updated last month
• Ecogenomics / CheckM
  Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
  ☆401Updated 7 months ago
• tseemann / mlst
  Scan contig files against PubMLST typing schemes
  ☆263Updated last month
• jenniferlu717 / Bracken
  Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…
  ☆336Updated 11 months ago
• jiarong / VirSorter2
  customizable pipeline to identify viral sequences from (meta)genomic data
  ☆280Updated last year
• MGXlab / CAT_pack
  CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…
  ☆223Updated 3 weeks ago
• bioinformatics-centre / kaiju
  Fast taxonomic classification of metagenomic sequencing reads using a protein reference database
  ☆298Updated 9 months ago
• gtonkinhill / panaroo
  An updated pipeline for pangenome investigation
  ☆341Updated 3 weeks ago
• rrwick / Filtlong
  quality filtering tool for long reads
  ☆387Updated 4 months ago
• jenniferlu717 / KrakenTools
  KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
  ☆365Updated 6 months ago
• ParBLiSS / FastANI
  Fast Whole-Genome Similarity (ANI) Estimation
  ☆446Updated last month
• labgem / PPanGGOLiN
  Build a partitioned pangenome graph from microbial genomes
  ☆292Updated last month
• nf-core / mag
  Assembly and binning of metagenomes
  ☆273Updated last week
• arpcard / rgi
  Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…
  ☆403Updated 3 weeks ago
• nextgenusfs / funannotate
  Eukaryotic Genome Annotation Pipeline
  ☆378Updated 2 weeks ago
• WrightonLabCSU / DRAM
  Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes
  ☆319Updated this week
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆338Updated 4 months ago
• schneebergerlab / syri
  Synteny and Rearrangement Identifier
  ☆446Updated 9 months ago
• jtamames / SqueezeMeta
  A complete pipeline for metagenomic analysis
  ☆441Updated 2 weeks ago
• DaehwanKimLab / centrifuge
  Classifier for metagenomic sequences
  ☆270Updated 7 months ago
• ncbi / pgap
  NCBI Prokaryotic Genome Annotation Pipeline
  ☆366Updated this week
• biobakery / humann
  HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).
  ☆232Updated 2 weeks ago
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆252Updated last year
• bxlab / metaWRAP
  MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis
  ☆459Updated 2 years ago
• sanger-pathogens / Roary
  Rapid large-scale prokaryote pan genome analysis
  ☆368Updated 3 months ago
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆287Updated this week
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆213Updated 3 years ago
• tseemann / shovill
  ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads
  ☆252Updated last month
• apcamargo / genomad
  geNomad: Identification of mobile genetic elements
  ☆286Updated 3 months ago