PhySpeTree: an automated pipeline for reconstructing phylogenetic species trees
☆14Apr 15, 2024Updated 2 years ago
Alternatives and similar repositories for physpetools
Users that are interested in physpetools are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A novel bioinformatics pipeline for recent horizontal gene transfer detecting.☆12Nov 13, 2018Updated 7 years ago
- Tool to help visualize data after BLAST by generating pathways on KEGG using an input file of genes and their associated KEGG accession.☆10Apr 29, 2022Updated 4 years ago
- Analyzer of Gene and Species Trees☆11Aug 8, 2016Updated 9 years ago
- CREST - Classification Resources for Environmnetal Sequence Tags, is a collection of software and databases for taxonomic classification …☆12Mar 20, 2022Updated 4 years ago
- A package for making tree-based visualizations for embedding vectors☆10Feb 6, 2023Updated 3 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- ☆13Jan 23, 2020Updated 6 years ago
- Programs and documentation for the SAMSA pipeline, version 1.0☆16Dec 16, 2019Updated 6 years ago
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆25Jun 4, 2022Updated 3 years ago
- VGEA (Viral Genomes Easily Analyzed) is a pipeline for analysis of RNA virus next-generation sequencing data.☆20Sep 12, 2021Updated 4 years ago
- HGTphyloDetect is a versatile toolbox to identify horizontal gene transfer (HGT) events combined with phylogenetic analysis.☆44Feb 11, 2023Updated 3 years ago
- identify potential non-animal transcripts in animal transcriptomes☆13Nov 11, 2020Updated 5 years ago
- A pipeline for lightweight screening of Eukaryotic genomes and transcriptomes for recent HGT☆14Aug 26, 2025Updated 8 months ago
- Bayesian gene tree reconciliation and WGD inference using amalgamated likelihood estimation☆16Apr 29, 2025Updated last year
- GeneMiner: a tool for extracting phylogenetic markers from next-generation sequencing data☆12Feb 22, 2024Updated 2 years ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24May 30, 2024Updated last year
- Download NCBI assembly genomes with ftp. rsync, ascp☆12Aug 2, 2022Updated 3 years ago
- HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.☆145Sep 21, 2023Updated 2 years ago
- emapper-utils: utils for parse emapper result☆10Sep 22, 2020Updated 5 years ago
- Horizontal Gene Transfer Detection by Mapping Sequencing Reads☆21Aug 31, 2017Updated 8 years ago
- Example of SGTK application for E.coli dataset:☆31Jul 13, 2020Updated 5 years ago
- Phylommand is a software package to create, manipulate, and/or analyze phylogenetic trees or pairwise alignments.☆11Sep 5, 2024Updated last year
- ☆30Sep 21, 2023Updated 2 years ago
- A parallel API crawler for the retrieval of Kyoto Encyclopedia of Genes and Genomes metabolic and genomics data.☆23Jul 22, 2023Updated 2 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Miscellaneous scripts that serve a stand-alone purpose that might be useful for others.☆26Apr 28, 2021Updated 5 years ago
- FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…☆67Mar 15, 2026Updated last month
- ☆19Nov 11, 2024Updated last year
- R code for writing Beast2 XML (especially morphology/tip-dating)☆11Jun 26, 2024Updated last year
- convert nucleic sequence in protein sequence☆18Feb 2, 2023Updated 3 years ago
- Process consensus file for COG-UK data☆13Sep 7, 2021Updated 4 years ago
- Docker images of bioinformatics software☆21Jun 15, 2017Updated 8 years ago
- Visualize whole genome alignments as linear maps☆74Mar 27, 2026Updated last month
- Shiny GUI application for genomics meta-analysis☆22Nov 4, 2020Updated 5 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- An R package for displaying binary trees, aiming to represent multiple layers of information on dendrogram leaves.☆15Feb 18, 2026Updated 2 months ago
- An easy way of MLSTyping your genomes in R.☆19Dec 21, 2020Updated 5 years ago
- Mapping-Assisted Targeted-Assembly for Metagenomics☆27Mar 28, 2025Updated last year
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆51Sep 23, 2022Updated 3 years ago
- A phylogeny dating method using least-squares algorithms and criteria☆32Oct 25, 2024Updated last year
- Indel-aware consensus for aligned BAM☆21Aug 16, 2025Updated 8 months ago
- CADD-SV – a framework to score the effect of structural variants☆18Feb 11, 2026Updated 2 months ago