Download assembly files from NCBI
☆13May 9, 2023Updated 2 years ago
Alternatives and similar repositories for get_assemblies
Users that are interested in get_assemblies are comparing it to the libraries listed below
Sorting:
- ISCompare, an opensource program to identify Differentially Located Insertion Sequences☆14Jul 30, 2024Updated last year
- Hybrid Assembler for Plasmids☆10Jul 28, 2022Updated 3 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated this week
- zDB: comparative bacterial genomics made easy☆40Feb 2, 2026Updated last month
- BACTpipe: An assembly and annotation pipeline for bacterial genomics☆20Dec 3, 2024Updated last year
- Bacterial genomes finishing tool for structural insights on draft genomes☆23Sep 22, 2023Updated 2 years ago
- hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performance☆22Mar 8, 2024Updated 2 years ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆21Apr 20, 2023Updated 2 years ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆63Mar 3, 2026Updated 2 weeks ago
- Bacterial taxonomy construction and evaluation in R☆15Jan 30, 2024Updated 2 years ago
- Genome-wide gene gain/loss mapping tool using DTL(Duplication-Transfer-Loss) reconciliation method☆17Dec 29, 2022Updated 3 years ago
- Metabolic scanning and annotation of Metagenomes☆10Dec 18, 2025Updated 3 months ago
- Targeted Detection and Reconstruction of Plasmids☆22May 7, 2024Updated last year
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆64Jan 22, 2026Updated last month
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆13Jun 10, 2021Updated 4 years ago
- Plot genome alignment figure using progressiveMauve & genoPlotR☆22Aug 5, 2022Updated 3 years ago
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆21Mar 1, 2026Updated 2 weeks ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆10Jun 13, 2023Updated 2 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50Apr 16, 2024Updated last year
- A package to annotate protein sequences☆62Feb 23, 2025Updated last year
- Plot bacterial gene maps and genome comparison plots from command line with genoPlotR and GenomeDiagram☆12Mar 10, 2026Updated last week
- A toolbox for pangenome analysis and threshold evaluation.☆100Jul 8, 2022Updated 3 years ago
- Hands-on workflow for learning metagenomics including DNA mapping, binning, QC and annotation. Answers and example code available in the…☆14Mar 25, 2022Updated 3 years ago
- Rapid determination of appropriate reference genomes.☆100Jan 22, 2025Updated last year
- Wrapper for short and long read mapping, creation of quality report(s) and estimation of genome size☆12Sep 30, 2025Updated 5 months ago
- tree visualization for tree + annotation data☆58Jun 17, 2025Updated 9 months ago
- whole genome MLST analysis☆51Mar 13, 2026Updated last week
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆25Nov 19, 2025Updated 4 months ago
- Plascad is a computationally efficient tool designed for plasmids classification, antibiotic resistance genes (ARGs) annotation and plasm…☆51Feb 2, 2021Updated 5 years ago
- Ying's tools for analysis, with particular focus on microbiome data☆41Jan 27, 2026Updated last month
- 🧬 MSABrowser: dynamic and fast visualization of sequence alignments, variations, and annotations☆37May 21, 2024Updated last year
- Making whole bacterial genome sequencing data analysis easy☆113Apr 22, 2025Updated 10 months ago
- A platform for targeted annotation of (meta)genomic and (meta)transcriptomic datasets using HMM sets.☆14Jul 14, 2024Updated last year
- ☆26Jan 30, 2025Updated last year
- Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.☆121Jan 22, 2025Updated last year
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆13Feb 9, 2025Updated last year
- Package that facilitates pulling database entries from KEGG via its REST API☆11Feb 21, 2026Updated last month
- A pipeline for whole genome assembly☆16Apr 21, 2022Updated 3 years ago
- A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concat…☆60Dec 5, 2025Updated 3 months ago