WatsonLab / MAGpyLinks
Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
☆62Updated 2 years ago
Alternatives and similar repositories for MAGpy
Users that are interested in MAGpy are comparing it to the libraries listed below
Sorting:
- ☆50Updated last year
- GTDB taxonomy taxdump files with trackable TaxIds☆53Updated last month
- ☆36Updated 3 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resis…☆36Updated 2 months ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆46Updated 5 years ago
- Metagenomics-related extended functionalities to samtools☆21Updated last year
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- scripts for estimating bacteria replication rates based on population genome copy number variation☆72Updated 5 years ago
- Ley Lab MetaGenome Profiler DataBase generator☆50Updated 2 years ago
- IS mapping software☆54Updated 3 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 3 years ago
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆30Updated 5 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆44Updated 4 years ago
- GraftM - Rapid community profiles from metagenomes☆45Updated 10 months ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆49Updated last year
- Improvement of metagenome-assembled genomes☆52Updated 5 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆58Updated last year
- Estimate metagenomic coverage and sequence diversity☆53Updated 10 months ago
- ☆24Updated 6 years ago
- Identify phage regions in bacterial genomes for masking purposes☆32Updated 5 years ago
- BEAV: Bacterial Element Annotation reVamped☆66Updated 7 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- reference-based long read assemblies of bacterial genomes☆49Updated 3 years ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- ☆28Updated last year