ctb / 2025-ncbi-rest-apiView external linksLinks
Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t
☆12Feb 23, 2025Updated 11 months ago
Alternatives and similar repositories for 2025-ncbi-rest-api
Users that are interested in 2025-ncbi-rest-api are comparing it to the libraries listed below
Sorting:
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆26Jul 22, 2024Updated last year
- Utility to analyse a group of closely related MAgs/Genomes/bins/SUBs of more or less dubious origin☆15Sep 24, 2024Updated last year
- Phylogenetic Organization of Metagenomic Signals (POMS)☆18Dec 19, 2022Updated 3 years ago
- Bin Chicken - recovery of low abundance and taxonomically targeted metagenome assembled genomes (MAGs) through strategic coassembly☆70Feb 5, 2026Updated last week
- Database and pipeline for protein structure-guided annotations of ecologically relevant functions at the metagenome scale.☆24Nov 2, 2025Updated 3 months ago
- MICROPHERRET: MICRObial PHEnotypic tRait ClassifieR using machine lEarning Techniques☆12Dec 16, 2025Updated last month
- ☆10Mar 29, 2025Updated 10 months ago
- PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes☆25Dec 4, 2023Updated 2 years ago
- ☆20Dec 13, 2023Updated 2 years ago
- Pipeline for identification of eukaryotic contigs in metagenomic assemblies☆13Mar 14, 2024Updated last year
- Find Prokaryotic DNA methylase genes in proteins, contigs, or genomes☆11Jan 23, 2026Updated 3 weeks ago
- scripts for microbiome analysis☆11Jul 25, 2024Updated last year
- Fast tool to build the core genome of prokaryotic genomes. Can handle large datasets. Dependencis: Usearch & Numpy☆10Nov 26, 2025Updated 2 months ago
- Metabolic scanning and annotation of Metagenomes☆10Dec 18, 2025Updated last month
- R package for computing alpha and beta contributional diversity metrics☆10May 5, 2023Updated 2 years ago
- Microbial Phenotype Prediction, successor to PICA, implemented with Python 3.7 and scikit-learn☆12Sep 10, 2021Updated 4 years ago
- A platform for targeted annotation of (meta)genomic and (meta)transcriptomic datasets using HMM sets.☆14Jul 14, 2024Updated last year
- Assessing the quality of prokaryotic genomes, filtering and dereplication☆11Aug 26, 2022Updated 3 years ago
- Python package for detection of chimerism and contamination in prokaryotic genomes.☆79Nov 23, 2023Updated 2 years ago
- codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, prophage, etc.) relative to the…☆13Jan 19, 2026Updated 3 weeks ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Apr 10, 2025Updated 10 months ago
- Improvement of Long Read Assemblies (ILRA) is a pipeline to help in the post assembly process (finishing) by cleaning and merging contigs…☆13Nov 9, 2024Updated last year
- ☆14Oct 14, 2023Updated 2 years ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆17Nov 24, 2025Updated 2 months ago
- vim plugin for DNA sequences and sequencing files (SAM/BAM, PAF, FA/FQ, etc.)☆19Jun 2, 2025Updated 8 months ago
- Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes☆21Dec 9, 2025Updated 2 months ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 2 years ago
- Pipeline for Reproducible and Scalable Integration of Metagenomic and Metatranscriptomic Data☆17Dec 5, 2025Updated 2 months ago
- ☆14Oct 29, 2024Updated last year
- Protocol for finding informative protein families and then using them to score omic samples☆18Jul 27, 2022Updated 3 years ago
- ☆17May 13, 2025Updated 9 months ago
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆71Jan 5, 2026Updated last month
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆33Dec 4, 2025Updated 2 months ago
- Northern Arizona SNP Pipeline☆20Oct 29, 2024Updated last year
- ☆19Nov 17, 2025Updated 2 months ago
- ☆19Feb 15, 2025Updated 11 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Apr 26, 2025Updated 9 months ago
- MAGScoT - a MAG scoring and refinement tool☆42Oct 10, 2024Updated last year