Phylogenetic placement and downstream analysis
☆96Jan 28, 2026Updated 6 months ago
Alternatives and similar repositories for pplacer
Users that are interested in pplacer are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Create and maintain phylogenetic "reference packages" of biological sequences.☆22May 27, 2026Updated 2 months ago
- PhylOTU identifies microbial OTUs from metagenomic data☆24May 16, 2013Updated 13 years ago
- Phylogenetic and taxonomic analysis for genomes and metagenomes☆82Feb 17, 2016Updated 10 years ago
- ☆15Aug 28, 2014Updated 11 years ago
- Extends the scons build tool for reproducible workflows in bioinformatics.☆16Apr 16, 2026Updated 4 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics☆20Jan 13, 2019Updated 7 years ago
- SINA - Reference based multiple sequence alignment☆41Dec 13, 2020Updated 5 years ago
- Make and use nested directory trees corresponding to combinatorial choices of parameters☆20Apr 23, 2017Updated 9 years ago
- Generate mutated sequence files from a reference genome.☆11Jun 12, 2026Updated 2 months ago
- An integrated pipeline for estimating strain-level genomic variation from metagenomic data☆135Oct 6, 2023Updated 2 years ago
- Interactive tools for metagenome visualization and binning in R☆27Jun 28, 2018Updated 8 years ago
- ☆14Apr 30, 2020Updated 6 years ago
- Phylogenetic Organization of Metagenomic Signals (POMS)☆18Dec 19, 2022Updated 3 years ago
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆90Oct 27, 2023Updated 2 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- A toolkit for analyzing and visualizing phylogenetic placement data☆65Apr 28, 2026Updated 3 months ago
- EMIRGE reconstructs full length ribosomal genes from short read sequencing data.☆38Sep 15, 2023Updated 2 years ago
- sensitive and precise assembly of short sequencing reads☆169Oct 11, 2024Updated last year
- Generate de novo taxonomy of full length 16S rRNA sequences directly from environmental samples☆20Nov 23, 2024Updated last year
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆411Mar 2, 2026Updated 5 months ago
- Taxonomy-aware DNA sequence processing toolkit☆34Jun 7, 2026Updated 2 months ago
- A platform for targeted annotation of (meta)genomic and (meta)transcriptomic datasets using HMM sets.☆18Aug 7, 2026Updated last week
- the Metagenomic test for Presence Or Absence of Pathways☆13Mar 4, 2019Updated 7 years ago
- PARTIE is a program to partition sequence read archive (SRA) metagenomics data into amplicon and shotgun data sets. The user-supplied ann…☆25Feb 25, 2023Updated 3 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- simple and not slow ORF caller☆24Apr 7, 2026Updated 4 months ago
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- raw data from tax-credit project☆14Sep 19, 2019Updated 6 years ago
- Fast taxonomic classification of metagenomic sequencing reads using a protein reference database☆306Jun 9, 2026Updated 2 months ago
- From annotated genomes to metabolic screening in large scale microbiotas☆77Jul 27, 2026Updated 2 weeks ago
- GraftM - Rapid community profiles from metagenomes☆56Nov 6, 2025Updated 9 months ago
- Provides a local database of in-house and published genomes for Bacteria and Archaea from NCBI☆24Sep 3, 2014Updated 11 years ago
- Fast genome and metagenome distance estimation using MinHash☆451Sep 19, 2025Updated 10 months ago
- FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of mic…☆24Jul 3, 2021Updated 5 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Metagenomic binning suite☆29Sep 30, 2022Updated 3 years ago
- Utility to analyse a group of closely related MAgs/Genomes/bins/SUBs of more or less dubious origin☆15Sep 24, 2024Updated last year
- Ensemble of HMM methods (SEPP, TIPP, UPP)☆96Aug 11, 2025Updated last year
- A whole-genome and alignment-free prokaryotic phylogeny tool☆23May 26, 2026Updated 2 months ago
- Rapid comparison and dereplication of genomes☆351Jul 16, 2026Updated last month
- MiGA: Microbial Genomes Atlas☆33Aug 7, 2026Updated last week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 2 months ago