Ecogenomics / CheckMLinks
Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
☆401Updated 7 months ago
Alternatives and similar repositories for CheckM
Users that are interested in CheckM are comparing it to the libraries listed below
Sorting:
- MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis☆456Updated 2 years ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆365Updated 6 months ago
- Rapid large-scale prokaryote pan genome analysis☆368Updated 3 months ago
- Fast Whole-Genome Similarity (ANI) Estimation☆446Updated last month
- A tool for generating consensus long-read assemblies for bacterial genomes☆338Updated 4 months ago
- NCBI Prokaryotic Genome Annotation Pipeline☆365Updated last week
- Scan contig files against PubMLST typing schemes☆262Updated last month
- Eukaryotic Genome Annotation Pipeline☆378Updated 2 weeks ago
- customizable pipeline to identify viral sequences from (meta)genomic data☆280Updated last year
- Rapid comparison and dereplication of genomes☆326Updated 2 months ago
- quality filtering tool for long reads☆387Updated 4 months ago
- Pilon is an automated genome assembly improvement and variant detection tool☆375Updated 3 years ago
- Bacterial ribosomal RNA predictor☆279Updated 3 weeks ago
- Mass screening of contigs for antimicrobial and virulence genes☆472Updated last week
- Build a partitioned pangenome graph from microbial genomes☆292Updated last month
- Genome assembly evaluation tool☆489Updated last year
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆445Updated 3 months ago
- Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…☆336Updated 11 months ago
- adapter trimmer for Oxford Nanopore reads☆380Updated last year
- Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…☆403Updated 3 weeks ago
- MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data☆390Updated last month
- (Not Offical) BBMap short read aligner, and other bioinformatic tools.☆245Updated 4 years ago
- Sequence correction provided by ONT Research☆499Updated last month
- A complete pipeline for metagenomic analysis☆441Updated 2 weeks ago
- Read alignment statistics for metagenomics☆387Updated 3 weeks ago
- Fast taxonomic classification of metagenomic sequencing reads using a protein reference database☆298Updated 9 months ago
- An updated pipeline for pangenome investigation☆339Updated 3 weeks ago
- Synteny and Rearrangement Identifier☆446Updated 9 months ago
- Assembly and binning of metagenomes☆270Updated last week
- Plotting scripts for long read sequencing data☆528Updated 2 months ago