SegataLab / panphlanLinks
PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples
☆45Updated last year
Alternatives and similar repositories for panphlan
Users that are interested in panphlan are comparing it to the libraries listed below
Sorting:
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆61Updated last year
- Set of utilities on sequences and BAM files☆27Updated 3 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 4 years ago
- Microbiome classification pipeline☆66Updated 3 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆42Updated 5 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- Improvement of metagenome-assembled genomes☆54Updated 5 years ago
- ☆41Updated 4 years ago
- Ley Lab MetaGenome Profiler DataBase generator☆50Updated 2 years ago
- whole genome MLST analysis☆46Updated 2 months ago
- FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…☆67Updated 5 months ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆46Updated 5 years ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆43Updated 2 years ago
- GTDB taxonomy taxdump files with trackable TaxIds☆56Updated 4 months ago
- Gene-flank analysis tool☆29Updated 8 months ago
- Discover and annotate the virome☆46Updated last month
- ☆84Updated last year
- Split Kmer Analysis☆65Updated 3 years ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆34Updated 2 years ago
- A tool for removing redundant genomes from a set of assemblies☆76Updated 2 years ago
- MetaWIBELE: Workflow to Identify novel Bioactive Elements in microbiome☆22Updated 4 months ago
- ☆56Updated last year
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- scripts for estimating bacteria replication rates based on population genome copy number variation☆73Updated 5 years ago
- MetaCompass: Reference-guided Assembly of Metagenomes☆39Updated 2 weeks ago
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆22Updated last year
- The Prokaryotic Genomics and Comparative Genomics Analysis Pipeline☆40Updated 2 years ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆32Updated last month
- A toolkit for prokaryotic comparative genomics☆50Updated 7 months ago