Whole genome core alignments from multiple draft genomes
β13Sep 14, 2016Updated 10 years ago
Alternatives and similar repositories for scapper
Users that are interested in scapper are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Salmonella serotyping from genome sequencing dataβ11Sep 3, 2018Updated 8 years ago
- π π« Trim, circularise and orient long read bacterial genome assembliesβ28Sep 7, 2019Updated 7 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVGβ21Feb 15, 2019Updated 7 years ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomesβ127Jun 2, 2026Updated 3 months ago
- Order and orientation of complete bacterial genomesβ29Jun 30, 2026Updated 2 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer β’ AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Scripts to analyze gene content and make a concatenated alignment of core genes from bacterial genomes.β19Jul 20, 2018Updated 8 years ago
- Finding regions of similarity between plasmidsβ17Jul 15, 2026Updated 2 months ago
- Finding prophage regions in bacterial genomes using brute forceβ22Jan 20, 2023Updated 3 years ago
- Predict plasmids from uncorrected long read dataβ41Feb 27, 2026Updated 6 months ago
- Assembling the cause of phenotypes and genotypes from NGS dataβ29Jun 11, 2020Updated 6 years ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteriaβ11Feb 6, 2018Updated 8 years ago
- β‘οΈπ§¬ FastMLST: A multi-core tool for multilocus sequence typing of draft genome assembliesβ26Jul 10, 2026Updated 2 months ago
- hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performanceβ23Mar 8, 2024Updated 2 years ago
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignmentβ16Dec 5, 2018Updated 7 years ago
- GPUs on demand by Runpod - Special Offer Available β’ AdRun AI, ML, and HPC workloads on powerful cloud GPUsβwithout limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- A k-mer based program for the identification of known plasmids from whole-genome sequencing readsβ36Feb 3, 2021Updated 5 years ago
- Gene Absence Presence Identification tool.β27Mar 28, 2025Updated last year
- An ultra fast and accurate paired-end adapter trimmer that needs no a priori adapter sequences.β22Jan 19, 2021Updated 5 years ago
- Reconstruction of transmission trees using genomic dataβ72Jul 14, 2026Updated 2 months ago
- Plot bacterial gene maps and genome comparison plots from command line with genoPlotR and GenomeDiagramβ13Mar 10, 2026Updated 6 months ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequencesβ27Aug 8, 2022Updated 4 years ago
- Pipeline to generate NGS reads from a phylogenyβ39Sep 13, 2022Updated 4 years ago
- plasmidVerify: plasmid contig verification toolβ15Apr 30, 2020Updated 6 years ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequencesβ67Sep 1, 2026Updated 2 weeks ago
- Wordpress hosting with auto-scaling - Free Trial Offer β’ AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- IslandPath standalone softwareβ38Nov 7, 2023Updated 2 years ago
- Genome-wide gene gain/loss mapping tool using DTL(Duplication-Transfer-Loss) reconciliation methodβ18Dec 29, 2022Updated 3 years ago
- Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files, rename fasta files (prefix aβ¦β23Jul 22, 2026Updated last month
- Wrapper for short and long read mapping, creation of quality report(s) and estimation of genome sizeβ12Sep 30, 2025Updated 11 months ago
- Utilities written for bioinformaticsβ17Sep 27, 2022Updated 3 years ago
- Bayesian inference of ancestral dates on bacterial phylogenetic treesβ99Dec 9, 2025Updated 9 months ago
- β11Sep 16, 2020Updated 6 years ago
- β13Sep 4, 2017Updated 9 years ago
- An automated assembly pipeline for microbial genomesβ19Aug 26, 2026Updated 3 weeks ago
- Managed hosting for WordPress and PHP on Cloudways β’ AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assembliesβ184Apr 16, 2025Updated last year
- Algorithm to divide a phylogenetic tree into segments based on phenotypes at the leaves of the treeβ26Jul 13, 2018Updated 8 years ago
- Making whole bacterial genome sequencing data analysis easyβ116Apr 22, 2025Updated last year
- A Xojo/python tool for identification and annotation of transcription factor binding sites in bacterial genomesβ19Aug 8, 2026Updated last month
- post processing of bacterial pangenome gene presence/absence matricesβ68Jan 19, 2026Updated 8 months ago
- Interactive, web tool for exploring pan-genome of bacterial strainsβ50Jan 14, 2026Updated 8 months ago
- Pipeline for analysing intergenic regions in bacteriaβ39Oct 25, 2019Updated 6 years ago